Query 028987
Match_columns 200
No_of_seqs 116 out of 480
Neff 7.0
Searched_HMMs 46136
Date Fri Mar 29 05:41:01 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/028987.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/028987hhsearch_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-57 2.9E-62 367.8 14.5 176 9-200 1-176 (176)
2 PRK10016 DNA gyrase inhibitor; 97.8 0.0029 6.4E-08 49.5 15.7 150 23-200 2-153 (156)
3 PF06445 GyrI-like: GyrI-like 97.4 0.0046 1E-07 46.4 11.5 150 23-200 2-155 (155)
4 COG3449 DNA gyrase inhibitor [ 96.6 0.061 1.3E-06 42.7 11.9 146 23-198 2-148 (154)
5 PRK10016 DNA gyrase inhibitor; 94.6 0.24 5.2E-06 38.5 8.1 55 129-185 2-56 (156)
6 smart00871 AraC_E_bind Bacteri 94.6 1.4 3E-05 32.8 16.1 153 24-200 2-158 (158)
7 COG3449 DNA gyrase inhibitor [ 93.1 0.45 9.8E-06 37.8 6.9 57 129-187 2-59 (154)
8 PF06445 GyrI-like: GyrI-like 92.3 0.44 9.6E-06 35.4 5.8 68 129-197 2-71 (155)
9 COG3708 Uncharacterized protei 90.0 5.6 0.00012 31.6 10.2 88 103-200 65-155 (157)
10 COG4978 Transcriptional regula 89.1 4 8.7E-05 32.3 8.7 146 24-200 5-152 (153)
11 PRK15121 right oriC-binding tr 79.8 7.3 0.00016 33.3 6.9 89 104-200 194-288 (289)
12 smart00871 AraC_E_bind Bacteri 78.3 11 0.00023 27.8 6.7 58 129-186 1-61 (158)
13 COG4978 Transcriptional regula 68.8 26 0.00057 27.6 7.0 53 128-181 3-55 (153)
14 PHA00159 endonuclease I 58.7 17 0.00037 28.4 4.0 42 159-200 21-67 (148)
15 PF02120 Flg_hook: Flagellar h 33.9 1.4E+02 0.003 20.2 5.2 45 129-173 28-72 (85)
16 PRK13731 conjugal transfer sur 33.7 85 0.0018 26.8 4.7 52 128-181 41-92 (243)
17 TIGR01752 flav_long flavodoxin 26.5 1.4E+02 0.003 23.3 4.6 50 135-184 76-126 (167)
18 PF03366 YEATS: YEATS family; 24.6 64 0.0014 22.8 2.2 21 8-28 36-57 (84)
19 KOG1386 Nucleoside phosphatase 22.0 1.6E+02 0.0034 27.8 4.7 63 103-168 171-235 (501)
20 PRK11615 hypothetical protein; 21.9 4.5E+02 0.0097 21.5 7.3 63 106-168 48-110 (185)
21 PF09413 DUF2007: Domain of un 21.2 1.1E+02 0.0024 19.8 2.7 39 155-198 9-51 (67)
22 PF14526 Cass2: Integron-assoc 20.7 3.5E+02 0.0077 19.9 11.0 144 25-199 1-150 (150)
23 PRK12359 flavodoxin FldB; Prov 20.4 2.4E+02 0.0051 22.5 4.9 53 135-187 77-130 (172)
24 PF05818 TraT: Enterobacterial 20.1 1.6E+02 0.0034 24.8 3.9 26 156-181 37-62 (215)
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-57 Score=367.76 Aligned_cols=176 Identities=46% Similarity=0.692 Sum_probs=140.3
Q ss_pred ccCCCCeEEEeeCCCeEEEEeCCceEEEEEeCCCCccCchhhHHHHHHHhhcccCCCCCCCCCcccCCCCeEEecCCchh
Q 028987 9 SVETPKYEVIQSTFDYEIRKYAPSVVAEVTYDPSTFKGNKDGGFSVLANYIGALGNPQNTKPEKIAMTAPVITKSSPEEE 88 (200)
Q Consensus 9 ~~e~P~y~vl~~~~~yEvR~Y~~~~wa~t~~~~~~~~~a~~~gF~~L~~YI~~~g~G~N~~~~~i~MT~PV~~~~~~~~~ 88 (200)
.+|||+|+||++.++||||+|++++||||++.+++++.|...||++|++||+ |+|+++++|+||+||+++..
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 DIECPPYEVLKKGDDYEIRRYPPAKWASTTVSGCSFEEASSSGFRRLFRYIF----GKNSAGEKIAMTAPVLTQVI---- 72 (176)
T ss_dssp --BS-SEEEECCCSSCEEEEE--CEEEEEEEECS-HHHHHHHHHHHHHHHHC----T-CTT------BS-EEEEEE----
T ss_pred CCcCCCeEEEEeCCCEEEEEECCceEEEEEecCCChhHHHHHHHHHHHHHHh----cCCcccceeeccCCEEEEEE----
Confidence 3699999999999999999999999999999999999999999999999998 88999999999999999972
Q ss_pred hhhccCCceeccCCCeeEEEEEEeecCccCccCCCCCCCCCeEEEEeCCeEEEEEEecCccChHHHHHHHHHHHHHHHhC
Q 028987 89 KIAMTAPVVTKSDEKKMVTMQFVLPEKYQKAEEAPKPVDERVVIREEGERKYGVVKFGGVASDEVVGEKVDKLKKSLEKD 168 (200)
Q Consensus 89 ~~~mt~pv~~~~~~~~~~tmsF~lP~~~~~~~~~P~P~d~~V~i~~~p~~~v~v~~F~G~~~~~~~~~~~~~L~~~L~~~ 168 (200)
.|+.. .|++.++|||+||.+|| +++||+|+|++|+|+++|+.++||++|+|++++.++.+++++|+++|+++
T Consensus 73 --~~~~~-----~~~~~~t~~f~lP~~~~-~~~~P~P~d~~V~i~~~p~~~~~v~~F~G~~~~~~~~~~~~~L~~~L~~~ 144 (176)
T PF04832_consen 73 --PMTAE-----SCEKEYTMSFFLPSEYQ-AENPPKPTDPDVFIEEVPERTVYVRRFSGFATDEKIQEEAKKLRAALKKD 144 (176)
T ss_dssp --ETTTT-----TCECEEEEEEE--HHHC--TS---BSSTTEEEEEC-SEEEEEEEECS--SHHHHHHHHHHHHHHCCCT
T ss_pred --cCCCc-----ccCCcEEEEEEcCcccc-cccCCCCCCCeEEEEEecCcEEEEEEECCcCCHHHHHHHHHHHHHHHHHc
Confidence 23331 34678999999999999 89999999999999999999999999999999999999999999999999
Q ss_pred CCeeeCcEEEEEeCCCCCCCCCCeeeEEEEeC
Q 028987 169 GYKVVGQFLLARYNPPWTLPPFRTNEVMIPVE 200 (200)
Q Consensus 169 g~~~~~~~~~a~Yd~P~~~p~~R~NEV~i~v~ 200 (200)
|+...+.+++|+||+||+++++|||||||+||
T Consensus 145 g~~~~~~~~~a~Yd~P~~~~~~R~NEV~i~v~ 176 (176)
T PF04832_consen 145 GLKDKGYYYVAGYDPPFTPPFNRRNEVWIPVK 176 (176)
T ss_dssp THHCCCEEEEEESSSS-SSSSSSCEEEEEE--
T ss_pred CCCcCCCeEEEEcCCCCCCccCcceEEEEecC
Confidence 99966789999999998888999999999986
No 2
>PRK10016 DNA gyrase inhibitor; Provisional
Probab=97.77 E-value=0.0029 Score=49.46 Aligned_cols=150 Identities=17% Similarity=0.228 Sum_probs=96.9
Q ss_pred CeEEEEeCCceEEEEEeCCCCccCchhhHHHHHHHhhcccCCCCCCCCCcccCCCCeEEecCCchhhhhccCCceeccCC
Q 028987 23 DYEIRKYAPSVVAEVTYDPSTFKGNKDGGFSVLANYIGALGNPQNTKPEKIAMTAPVITKSSPEEEKIAMTAPVVTKSDE 102 (200)
Q Consensus 23 ~yEvR~Y~~~~wa~t~~~~~~~~~a~~~gF~~L~~YI~~~g~G~N~~~~~i~MT~PV~~~~~~~~~~~~mt~pv~~~~~~ 102 (200)
+++|+..++...|+....+... +...++|.+|+.++. .|. +..+ +.+.... + .|-.+..+
T Consensus 2 ~v~i~~~~~~~va~ir~~g~~~-~~~~~~~~~L~~~~~-----~~~----l~~~-~~~~i~~-D-------~p~~~~~~- 61 (156)
T PRK10016 2 NYEIKQEQKRTIAGFHLVGPWE-QTVKQGFEQLMMWVD-----SHN----IVPK-EWVAVYY-D-------NPDEVPAE- 61 (156)
T ss_pred ceEEEEccCceEEEEEeecCch-hHHHHHHHHHHHHHH-----HcC----CCCC-cEEEEEC-C-------CCCCCChH-
Confidence 4789999999999988877543 346789999999995 342 2223 2333322 1 12110100
Q ss_pred CeeEEEEEEeecCccCccCCCCCCCCCeEEEEeCCeEEEEEEecCccChHHHHHHHHH-HHHHHHhCCCeeeCcEEEEEe
Q 028987 103 KKMVTMQFVLPEKYQKAEEAPKPVDERVVIREEGERKYGVVKFGGVASDEVVGEKVDK-LKKSLEKDGYKVVGQFLLARY 181 (200)
Q Consensus 103 ~~~~tmsF~lP~~~~~~~~~P~P~d~~V~i~~~p~~~v~v~~F~G~~~~~~~~~~~~~-L~~~L~~~g~~~~~~~~~a~Y 181 (200)
+=.+-++.-+|.... .| +.+..+.+..+|+.++||..+.|. -+.+.+.-.. +.+||.++|....+.+.+--|
T Consensus 62 ~~R~d~~i~v~~~~~----~~-~~~~~~~~~~ip~g~yAv~~~~G~--~~~l~~~~~~i~~~Wl~~sgy~~~~~p~~E~Y 134 (156)
T PRK10016 62 KLRCDTVVTVPDDFV----LP-ENSEGVILTEIPGGQYAVAVARVV--DDDFAKPWYQFFNSLLQDSAYQMAPKPCFEVY 134 (156)
T ss_pred HceeeEEEEeCCCcc----cC-CCCCCeEEEEECCCcEEEEEEECC--HHHHHHHHHHHHHHhchhcCCccCCCCCEEEe
Confidence 113788999997642 23 223479999999999999999995 4456666656 779999999988744333334
Q ss_pred C-CCCCCCCCCeeeEEEEeC
Q 028987 182 N-PPWTLPPFRTNEVMIPVE 200 (200)
Q Consensus 182 d-~P~~~p~~R~NEV~i~v~ 200 (200)
. .|... -.-.=||||+|+
T Consensus 135 ~~~~~~~-~~~~tei~iPI~ 153 (156)
T PRK10016 135 LNDGAED-GYWDIEMYVPVQ 153 (156)
T ss_pred CCCCCCC-CcEEEEEEEEeE
Confidence 3 34432 222459999984
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=97.38 E-value=0.0046 Score=46.39 Aligned_cols=150 Identities=20% Similarity=0.212 Sum_probs=97.8
Q ss_pred CeEEEEeCCceEEEEEeCCCCccCc-hhhHHHHHHHhhcccCCCCCCCCCccc-CCCCeEEecCCchhhhhccCCceecc
Q 028987 23 DYEIRKYAPSVVAEVTYDPSTFKGN-KDGGFSVLANYIGALGNPQNTKPEKIA-MTAPVITKSSPEEEKIAMTAPVVTKS 100 (200)
Q Consensus 23 ~yEvR~Y~~~~wa~t~~~~~~~~~a-~~~gF~~L~~YI~~~g~G~N~~~~~i~-MT~PV~~~~~~~~~~~~mt~pv~~~~ 100 (200)
+++|+.-++...+.....+..-... ....+.+|..++. .+ .+. ...+.+.-.... |.. ..
T Consensus 2 ~~~i~~~p~~~v~~~~~~~~~~~~~~i~~~~~~l~~~~~-----~~----~~~~~~~~~~~i~~~~--------~~~-~~ 63 (155)
T PF06445_consen 2 EVEIVTLPAFRVAGIRRKGPYEEEDSIPELWQRLMSWLK-----EI----GLSTDPGPIIGIYYDN--------PNI-TD 63 (155)
T ss_dssp CEEEEEEEEEEEEEEEEEEEHHHHHHHHHHHHHHHHHHH-----HH----HHCCSSSSEEEEEEEC--------CTS-ST
T ss_pred CcEEEEECCEEEEEEEEEECCchhhhHHHHHHHHHHHHH-----Hh----hcccCCCcceeEEecc--------ccc-cC
Confidence 4788888888888877664332212 5678899999985 22 111 445555443211 100 00
Q ss_pred CCCeeEEEEEEeecCccCccCCCCCCCCCeEEEEeCCeEEEEEEecCccChHHHHHHHHHHHH-HHHhCCCee-eCcEEE
Q 028987 101 DEKKMVTMQFVLPEKYQKAEEAPKPVDERVVIREEGERKYGVVKFGGVASDEVVGEKVDKLKK-SLEKDGYKV-VGQFLL 178 (200)
Q Consensus 101 ~~~~~~tmsF~lP~~~~~~~~~P~P~d~~V~i~~~p~~~v~v~~F~G~~~~~~~~~~~~~L~~-~L~~~g~~~-~~~~~~ 178 (200)
+..-.+.+++-++... +..+++....+|+..+++..|.|.. +.+.+....|.. ||.++|+.. .+..+-
T Consensus 64 ~~~~~~~~~~~~~~~~--------~~~~~~~~~~ip~g~ya~~~~~G~~--~~l~~~~~~l~~~~l~~~g~~~~~~~~~E 133 (155)
T PF06445_consen 64 DEEFRYDIGVEVDEDV--------PNPDGMESRTIPAGKYAVFEHKGPY--DDLQEAYQKLYNEWLPESGYERRDGPDFE 133 (155)
T ss_dssp GCEEEEEEEEEECTTC--------SGCTTSEEEEEECEEEEEEEEESCG--HGHHHHHHHHHHCHHHHCTCEEESSEEEE
T ss_pred CcceEEEEEEEEcccc--------cCCceEEEEEEcCcEEEEEEEEccH--HHHHHHHHHHHhhhHHHCCCccCCCCcEE
Confidence 1123455555555432 3467799999999999999999977 778889999999 999999944 444444
Q ss_pred EEeCCCCCCCCCCeeeEEEEeC
Q 028987 179 ARYNPPWTLPPFRTNEVMIPVE 200 (200)
Q Consensus 179 a~Yd~P~~~p~~R~NEV~i~v~ 200 (200)
...+.|...+-.-.=||||+|+
T Consensus 134 ~y~~~~~~~~~~~~~ei~iPik 155 (155)
T PF06445_consen 134 IYLNDPDTDEEEYVTEIYIPIK 155 (155)
T ss_dssp EEESSTTTTSCGEEEEEEEEEE
T ss_pred EECCCCCCCCCceEEEEEEEEC
Confidence 4455555333566779999985
No 4
>COG3449 DNA gyrase inhibitor [DNA replication, recombination, and repair]
Probab=96.64 E-value=0.061 Score=42.68 Aligned_cols=146 Identities=21% Similarity=0.169 Sum_probs=98.0
Q ss_pred CeEEEEeCCceEEEEEeCCCCccCchhhHHHHHHHhhcccCCCCCCCCCcccCCCCeEEecCCchhhhhccCCceeccCC
Q 028987 23 DYEIRKYAPSVVAEVTYDPSTFKGNKDGGFSVLANYIGALGNPQNTKPEKIAMTAPVITKSSPEEEKIAMTAPVVTKSDE 102 (200)
Q Consensus 23 ~yEvR~Y~~~~wa~t~~~~~~~~~a~~~gF~~L~~YI~~~g~G~N~~~~~i~MT~PV~~~~~~~~~~~~mt~pv~~~~~~ 102 (200)
+++|+..++...|.-...| ......++|.+|+.+-. .|.-- +-++.-+.-...+.+ .|.| .
T Consensus 2 dv~I~e~p~~~VA~~rh~G--~~~~~~~~~~~l~~W~~-----~~~l~---p~~S~~~gI~~ddP~---~Tp~------e 62 (154)
T COG3449 2 DVEIIELPPIPVAYLRHVG--DPATLKQTFEQLIAWRR-----ENGLL---PEQSETLGIYQDDPD---TTPA------E 62 (154)
T ss_pred CceEEecCCceEEEEEeeC--cHHHHHHHHHHHHHHHH-----HcCCC---CCCceEEEEecCCCC---CCCH------H
Confidence 7899999999999998887 33567789999999996 33221 113333333322211 1112 1
Q ss_pred CeeEEEEEEeecCccCccCCCCCCCCCeEEEEeCCeEEEEEEecCccChHHHHHH-HHHHHHHHHhCCCeeeCcEEEEEe
Q 028987 103 KKMVTMQFVLPEKYQKAEEAPKPVDERVVIREEGERKYGVVKFGGVASDEVVGEK-VDKLKKSLEKDGYKVVGQFLLARY 181 (200)
Q Consensus 103 ~~~~tmsF~lP~~~~~~~~~P~P~d~~V~i~~~p~~~v~v~~F~G~~~~~~~~~~-~~~L~~~L~~~g~~~~~~~~~a~Y 181 (200)
+=.+-.|..+|...+ +++..|.+-++|+..+||.+|.|.. +++.+- ..-+.+||.+.|....+.+.+.+|
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 KCRYDACVVVPEPIP-------ENSEGVQLGEIPGGLYAVARFRGTA--DDLAKAWGYIFGEWLPASGYEPRDRPILERY 133 (154)
T ss_pred HceeeEEEEcCCccC-------CCCCceeEeeecCCceEEEEEeccH--HHHHHHHHHHHhhhccccCcccCCCchHHHH
Confidence 225788888884433 3477899999999999999999954 333333 455677888889999888888888
Q ss_pred CCCCCCCCCCeeeEEEE
Q 028987 182 NPPWTLPPFRTNEVMIP 198 (200)
Q Consensus 182 d~P~~~p~~R~NEV~i~ 198 (200)
=+.... .-..|+.++
T Consensus 134 ~n~~~~--~~~~e~~vd 148 (154)
T COG3449 134 LNFPAE--DPEHEIEVD 148 (154)
T ss_pred hccCCC--CcceeEEEE
Confidence 666665 344444433
No 5
>PRK10016 DNA gyrase inhibitor; Provisional
Probab=94.64 E-value=0.24 Score=38.55 Aligned_cols=55 Identities=15% Similarity=0.201 Sum_probs=46.5
Q ss_pred CeEEEEeCCeEEEEEEecCccChHHHHHHHHHHHHHHHhCCCeeeCcEEEEEeCCCC
Q 028987 129 RVVIREEGERKYGVVKFGGVASDEVVGEKVDKLKKSLEKDGYKVVGQFLLARYNPPW 185 (200)
Q Consensus 129 ~V~i~~~p~~~v~v~~F~G~~~~~~~~~~~~~L~~~L~~~g~~~~~~~~~a~Yd~P~ 185 (200)
+|.|.++|+..++.++..|...+ .+.+...+|.+++.++|+... .+....||.|-
T Consensus 2 ~v~i~~~~~~~va~ir~~g~~~~-~~~~~~~~L~~~~~~~~l~~~-~~~~i~~D~p~ 56 (156)
T PRK10016 2 NYEIKQEQKRTIAGFHLVGPWEQ-TVKQGFEQLMMWVDSHNIVPK-EWVAVYYDNPD 56 (156)
T ss_pred ceEEEEccCceEEEEEeecCchh-HHHHHHHHHHHHHHHcCCCCC-cEEEEECCCCC
Confidence 58999999999999999996643 467888999999999998754 47888999993
No 6
>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=94.57 E-value=1.4 Score=32.75 Aligned_cols=153 Identities=16% Similarity=0.087 Sum_probs=83.4
Q ss_pred eEEEEeCCceEEEEEeCCCCccCchhhHHHHHHHhhcccCCCCCCCCCcccCCCCeEEecCCchhhhhccCCceeccCCC
Q 028987 24 YEIRKYAPSVVAEVTYDPSTFKGNKDGGFSVLANYIGALGNPQNTKPEKIAMTAPVITKSSPEEEKIAMTAPVVTKSDEK 103 (200)
Q Consensus 24 yEvR~Y~~~~wa~t~~~~~~~~~a~~~gF~~L~~YI~~~g~G~N~~~~~i~MT~PV~~~~~~~~~~~~mt~pv~~~~~~~ 103 (200)
+++..-++...+.....+........+.|.+|+.++. ..+....... .+++.-... .|.... +..
T Consensus 2 ~~i~~~~~~~v~~~~~~~~~~~~~i~~~~~~~~~~~~----~~~~~~~~~~--~~~~~~~~~--------~~~~~~-~~~ 66 (158)
T smart00871 2 VRIVELPAFKVAGLRHRGPYEEEKIPELWQRLIAWAK----ELGLLPIGPS--GPPYGVYYD--------DPDDTP-EGE 66 (158)
T ss_pred CEEEEcCCceEEEEEeecCcccccHHHHHHHHHHHHH----HcCCCCCCCC--ccEEEEECC--------CCCCCC-hhH
Confidence 3444455555665554433222235678889999885 1121111111 232222211 110000 012
Q ss_pred eeEEEEEEeecCccCccCCCCCCCCCeEEEEeCCeEEEEEEecCccChHHHHHHHHHHHHHHHhCCCeee---CcEEEEE
Q 028987 104 KMVTMQFVLPEKYQKAEEAPKPVDERVVIREEGERKYGVVKFGGVASDEVVGEKVDKLKKSLEKDGYKVV---GQFLLAR 180 (200)
Q Consensus 104 ~~~tmsF~lP~~~~~~~~~P~P~d~~V~i~~~p~~~v~v~~F~G~~~~~~~~~~~~~L~~~L~~~g~~~~---~~~~~a~ 180 (200)
-.+.+++.++.... . ...+.+..+|+..+++..|.|- ....+.+-..+|..++..++.... +..+--.
T Consensus 67 ~~~~~g~~v~~~~~----~----~~~~~~~~~p~~~y~~~~~~g~-~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~E~y 137 (158)
T smart00871 67 FRYDAGVEVSDEVE----N----PEGVETKEIPAGKYAVFTHKGG-SYDEIQETWEAIYGEWLPNSGYELRDAGPDFEIY 137 (158)
T ss_pred eEEEEEEEeCCCCC----C----CCCceEEEECCCcEEEEEEcCC-CHHHHHHHHHHHHHhhcccCCCccCcCCceEEEE
Confidence 24555555554321 2 2358899999999999999993 466788899999999888775432 3333333
Q ss_pred eCCCCC-CCCCCeeeEEEEeC
Q 028987 181 YNPPWT-LPPFRTNEVMIPVE 200 (200)
Q Consensus 181 Yd~P~~-~p~~R~NEV~i~v~ 200 (200)
++.|.. .+-...=|++|+|+
T Consensus 138 ~~~~~~~~~~~~~~ei~ipv~ 158 (158)
T smart00871 138 LNDPADTDPEELVTEIYIPIK 158 (158)
T ss_pred eCCCCCCChhHeEEEEEEEcC
Confidence 455432 12345678999885
No 7
>COG3449 DNA gyrase inhibitor [DNA replication, recombination, and repair]
Probab=93.07 E-value=0.45 Score=37.79 Aligned_cols=57 Identities=16% Similarity=0.064 Sum_probs=49.2
Q ss_pred CeEEEEeCCeEEEEEEecCccChHHHHHHHHHHHHHHHhCCCeeeC-cEEEEEeCCCCCC
Q 028987 129 RVVIREEGERKYGVVKFGGVASDEVVGEKVDKLKKSLEKDGYKVVG-QFLLARYNPPWTL 187 (200)
Q Consensus 129 ~V~i~~~p~~~v~v~~F~G~~~~~~~~~~~~~L~~~L~~~g~~~~~-~~~~a~Yd~P~~~ 187 (200)
+|.|.+.|+..||..+-.| ....+.+-.++|.+|.+++|+.... ....-.||.|-+-
T Consensus 2 dv~I~e~p~~~VA~~rh~G--~~~~~~~~~~~l~~W~~~~~l~p~~S~~~gI~~ddP~~T 59 (154)
T COG3449 2 DVEIIELPPIPVAYLRHVG--DPATLKQTFEQLIAWRRENGLLPEQSETLGIYQDDPDTT 59 (154)
T ss_pred CceEEecCCceEEEEEeeC--cHHHHHHHHHHHHHHHHHcCCCCCCceEEEEecCCCCCC
Confidence 6999999999999999999 7888999999999999999987754 4567778888743
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=92.27 E-value=0.44 Score=35.37 Aligned_cols=68 Identities=18% Similarity=0.088 Sum_probs=53.4
Q ss_pred CeEEEEeCCeEEEEEEecCccChHH-HHHHHHHHHHHHHhCCCe-eeCcEEEEEeCCCCCCCCCCeeeEEE
Q 028987 129 RVVIREEGERKYGVVKFGGVASDEV-VGEKVDKLKKSLEKDGYK-VVGQFLLARYNPPWTLPPFRTNEVMI 197 (200)
Q Consensus 129 ~V~i~~~p~~~v~v~~F~G~~~~~~-~~~~~~~L~~~L~~~g~~-~~~~~~~a~Yd~P~~~p~~R~NEV~i 197 (200)
+|.|.++|+.+++..+..|...+.. +.+...+|.+++...++. ....+....||.|... ......+++
T Consensus 2 ~~~i~~~p~~~v~~~~~~~~~~~~~~i~~~~~~l~~~~~~~~~~~~~~~~~~i~~~~~~~~-~~~~~~~~~ 71 (155)
T PF06445_consen 2 EVEIVTLPAFRVAGIRRKGPYEEEDSIPELWQRLMSWLKEIGLSTDPGPIIGIYYDNPNIT-DDEEFRYDI 71 (155)
T ss_dssp CEEEEEEEEEEEEEEEEEEEHHHHHHHHHHHHHHHHHHHHHHHCCSSSSEEEEEEECCTSS-TGCEEEEEE
T ss_pred CcEEEEECCEEEEEEEEEECCchhhhHHHHHHHHHHHHHHhhcccCCCcceeEEecccccc-CCcceEEEE
Confidence 5899999999999999999887766 899999999999998876 4456777788887543 244554443
No 9
>COG3708 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=89.97 E-value=5.6 Score=31.59 Aligned_cols=88 Identities=18% Similarity=0.231 Sum_probs=59.0
Q ss_pred CeeEEEEEEeecCccCccCCCCCCCCCeEEEEeCCeEEEEEEecCccChHHHHHHHHHHHH-HHHhCCCeeeCcEEEEEe
Q 028987 103 KKMVTMQFVLPEKYQKAEEAPKPVDERVVIREEGERKYGVVKFGGVASDEVVGEKVDKLKK-SLEKDGYKVVGQFLLARY 181 (200)
Q Consensus 103 ~~~~tmsF~lP~~~~~~~~~P~P~d~~V~i~~~p~~~v~v~~F~G~~~~~~~~~~~~~L~~-~L~~~g~~~~~~~~~a~Y 181 (200)
.+.|+...-..-... .+.|.+ ...-++|+.+++|-...|...+ +++--..+.. |+...+....+...+=.|
T Consensus 65 ~g~~~y~i~~ev~~~--~~~pe~----~~~i~iPa~~YavFt~~G~~~~--i~etw~~I~~~~~~~~~~~~~~~~~fE~Y 136 (157)
T COG3708 65 EGEFDYYIGVEVEDF--EDLPEG----MEVIEIPASTYAVFTHKGPIEE--IQETWQEIWKEWFPSSGYRHAEGPEFEVY 136 (157)
T ss_pred CCCEEEEEEEEeecc--ccCCCC----ceEEEeccceEEEEEecCCHHH--HHHHHHHHHHhhcccccccccCCCceEEe
Confidence 345555544443312 455555 7788899999999999997766 5665555554 467888777554466677
Q ss_pred CC--CCCCCCCCeeeEEEEeC
Q 028987 182 NP--PWTLPPFRTNEVMIPVE 200 (200)
Q Consensus 182 d~--P~~~p~~R~NEV~i~v~ 200 (200)
|. |.. -+-.=||||+|+
T Consensus 137 d~~~~~~--~~~~veIyIpV~ 155 (157)
T COG3708 137 DERDPDS--GNGKVEIYIPVK 155 (157)
T ss_pred cCCCCCC--CCceEEEEEEEe
Confidence 65 344 378889999984
No 10
>COG4978 Transcriptional regulator, effector-binding domain/component [Transcription / Signal transduction mechanisms]
Probab=89.06 E-value=4 Score=32.29 Aligned_cols=146 Identities=19% Similarity=0.259 Sum_probs=91.0
Q ss_pred eEEEEeCCceEEEEEeCCCCccCchhhHHHHHHHhhcccCCCCCCCCCcccCCCCeEEecCCchhhhhccCCceeccCCC
Q 028987 24 YEIRKYAPSVVAEVTYDPSTFKGNKDGGFSVLANYIGALGNPQNTKPEKIAMTAPVITKSSPEEEKIAMTAPVVTKSDEK 103 (200)
Q Consensus 24 yEvR~Y~~~~wa~t~~~~~~~~~a~~~gF~~L~~YI~~~g~G~N~~~~~i~MT~PV~~~~~~~~~~~~mt~pv~~~~~~~ 103 (200)
..+...++...+.....+. ........+..|.++++ .|+ .+.+ .|.....+.. ++.. . +
T Consensus 5 ~~~~~~~~~~v~~ir~~~~-~~~~~~~~~~el~~~~~-----~~~---~~~~-~~~~~~~~~~--------~~~~--~-~ 63 (153)
T COG4978 5 VVIKKLEEIKVVGIRFTGI-PERLIEQVYSELCNFLK-----SNG---IIPI-GPYGATIFHE--------PLKE--E-D 63 (153)
T ss_pred cEEEeecceeEEEEEEecC-cHHHHHHHHHHHHHHHh-----hcC---cccc-CCceEEEEee--------eecc--c-c
Confidence 4566677777777776654 34577789999999995 342 1222 2333332211 1100 0 1
Q ss_pred eeEEEEEEeecCccCccCCCCCCCCCeEEEEeCCeEEEEEEecCccChHHHHHHHHHHHHHHHhCCCeeeCcEEEEEeCC
Q 028987 104 KMVTMQFVLPEKYQKAEEAPKPVDERVVIREEGERKYGVVKFGGVASDEVVGEKVDKLKKSLEKDGYKVVGQFLLARYNP 183 (200)
Q Consensus 104 ~~~tmsF~lP~~~~~~~~~P~P~d~~V~i~~~p~~~v~v~~F~G~~~~~~~~~~~~~L~~~L~~~g~~~~~~~~~a~Yd~ 183 (200)
-..-+++++=.. .+ .|.++.+...|..+++...|.|...+ +.+.-++|..+++++|+...+..+-.--.+
T Consensus 64 ~~~~~s~~i~~~------~~--~~~~~~~~~~P~g~~a~~~~~G~~~~--~~~~y~rli~~iee~g~~i~g~~~E~y~~d 133 (153)
T COG4978 64 VDIEVSIPISGE------VE--GDIDIKIKTLPKGKYACIIHKGSYEE--VEQAYKRLIEYIEENGLEIIGPSREVYLID 133 (153)
T ss_pred cccceeEEEEEe------cC--CCCcceeEEccCceEEEEEEEcCccc--HHHHHHHHHHHHHHhCCcccCceEEEEecC
Confidence 123344443322 12 68889999999999999999997644 667788999999999999988655555555
Q ss_pred CCCC--CCCCeeeEEEEeC
Q 028987 184 PWTL--PPFRTNEVMIPVE 200 (200)
Q Consensus 184 P~~~--p~~R~NEV~i~v~ 200 (200)
|.+. +-.=.-||.|+|+
T Consensus 134 ~~~~~~~~e~~tei~i~v~ 152 (153)
T COG4978 134 PATEVNPEEYLTEIQIPVK 152 (153)
T ss_pred CccccChhHeEEEEEEEee
Confidence 5522 1344557777663
No 11
>PRK15121 right oriC-binding transcriptional activator; Provisional
Probab=79.85 E-value=7.3 Score=33.31 Aligned_cols=89 Identities=12% Similarity=0.050 Sum_probs=54.8
Q ss_pred eeEEEEEEeecCccCccCCCCCCCCCeEEEEeCCeEEEEEEecCccChHHHHHHHHHH-HHHHHhCCCeeeCcEEEEEeC
Q 028987 104 KMVTMQFVLPEKYQKAEEAPKPVDERVVIREEGERKYGVVKFGGVASDEVVGEKVDKL-KKSLEKDGYKVVGQFLLARYN 182 (200)
Q Consensus 104 ~~~tmsF~lP~~~~~~~~~P~P~d~~V~i~~~p~~~v~v~~F~G~~~~~~~~~~~~~L-~~~L~~~g~~~~~~~~~a~Yd 182 (200)
..+..+.-++.... ....| + .....+|+.++||.+|.|...+ +.+-...+ ..||-+.|+...+.+-+--|.
T Consensus 194 ~~~~y~i~v~~~~~-~~~~~----~-~~~~~Ip~G~YAvF~~~G~~~~--l~~~~~~Iy~~WLP~sg~~~~~~p~~e~y~ 265 (289)
T PRK15121 194 QEVFYTTALEPDQA-DGYVQ----T-GHPVMLQGGEYVMFTYEGLGTG--LQEFILTVYGTCMPMLNLTRRKGQDIERYY 265 (289)
T ss_pred EEEEEEEeeccccc-cccCC----C-CceEeeCCCCEEEEEEeCCHHH--HHHHHHHHHHHHCCCCCccccCCCCEEEEe
Confidence 35666666665432 01112 1 2567789999999999997643 55555555 579999999887655444443
Q ss_pred ----CCC-CCCCCCeeeEEEEeC
Q 028987 183 ----PPW-TLPPFRTNEVMIPVE 200 (200)
Q Consensus 183 ----~P~-~~p~~R~NEV~i~v~ 200 (200)
.|. ..+-.-.=||||+|+
T Consensus 266 ~~~~~~~~~~~~~~~~ei~iPi~ 288 (289)
T PRK15121 266 PAEDAKAGDRPINLRCEYLIPIR 288 (289)
T ss_pred cccCccccCCCceEEEEEEEEec
Confidence 333 221123349999985
No 12
>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=78.27 E-value=11 Score=27.80 Aligned_cols=58 Identities=21% Similarity=0.136 Sum_probs=45.0
Q ss_pred CeEEEEeCCeEEEEEEecCccChHHHHHHHHHHHHHHHhCCCeee---CcEEEEEeCCCCC
Q 028987 129 RVVIREEGERKYGVVKFGGVASDEVVGEKVDKLKKSLEKDGYKVV---GQFLLARYNPPWT 186 (200)
Q Consensus 129 ~V~i~~~p~~~v~v~~F~G~~~~~~~~~~~~~L~~~L~~~g~~~~---~~~~~a~Yd~P~~ 186 (200)
.+.|..+|+..++..++.|...+..+.+...+|.+++...+.... +..+...|+.|..
T Consensus 1 ~~~i~~~~~~~v~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 61 (158)
T smart00871 1 EVRIVELPAFKVAGLRHRGPYEEEKIPELWQRLIAWAKELGLLPIGPSGPPYGVYYDDPDD 61 (158)
T ss_pred CCEEEEcCCceEEEEEeecCcccccHHHHHHHHHHHHHHcCCCCCCCCccEEEEECCCCCC
Confidence 367899999999999999987755677778889999988876532 3567777777764
No 13
>COG4978 Transcriptional regulator, effector-binding domain/component [Transcription / Signal transduction mechanisms]
Probab=68.81 E-value=26 Score=27.64 Aligned_cols=53 Identities=21% Similarity=0.359 Sum_probs=43.4
Q ss_pred CCeEEEEeCCeEEEEEEecCccChHHHHHHHHHHHHHHHhCCCeeeCcEEEEEe
Q 028987 128 ERVVIREEGERKYGVVKFGGVASDEVVGEKVDKLKKSLEKDGYKVVGQFLLARY 181 (200)
Q Consensus 128 ~~V~i~~~p~~~v~v~~F~G~~~~~~~~~~~~~L~~~L~~~g~~~~~~~~~a~Y 181 (200)
-+|.+.++++..++.+++-|. .+..+.+-..+|.+.|...|..+.+.+.+-.|
T Consensus 3 ~e~~~~~~~~~~v~~ir~~~~-~~~~~~~~~~el~~~~~~~~~~~~~~~~~~~~ 55 (153)
T COG4978 3 VEVVIKKLEEIKVVGIRFTGI-PERLIEQVYSELCNFLKSNGIIPIGPYGATIF 55 (153)
T ss_pred cccEEEeecceeEEEEEEecC-cHHHHHHHHHHHHHHHhhcCccccCCceEEEE
Confidence 357899999999999999998 88899999999999999999766554433333
No 14
>PHA00159 endonuclease I
Probab=58.69 E-value=17 Score=28.44 Aligned_cols=42 Identities=26% Similarity=0.299 Sum_probs=30.0
Q ss_pred HHHHHHHHhCCCeeeCcEEEE-----EeCCCCCCCCCCeeeEEEEeC
Q 028987 159 DKLKKSLEKDGYKVVGQFLLA-----RYNPPWTLPPFRTNEVMIPVE 200 (200)
Q Consensus 159 ~~L~~~L~~~g~~~~~~~~~a-----~Yd~P~~~p~~R~NEV~i~v~ 200 (200)
++-.++|+..|+.++=+-... .=+..++|.|.+.|.|+|+++
T Consensus 21 ~k~ak~Le~~gv~~~yE~~ki~y~~pA~~~~YTPDF~LpnGiiiEvK 67 (148)
T PHA00159 21 DKVSKQLEKKGVKFDYELWKIPYVIPASDHKYTPDFLLPNGIIIETK 67 (148)
T ss_pred HHHHHHHHhcCCCeEeeeeeeeeeccCCCCeeCCceecCCCCEEEec
Confidence 456788999998775332222 346778888889999999875
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=33.92 E-value=1.4e+02 Score=20.18 Aligned_cols=45 Identities=22% Similarity=0.324 Sum_probs=30.5
Q ss_pred CeEEEEeCCeEEEEEEecCccChHHHHHHHHHHHHHHHhCCCeee
Q 028987 129 RVVIREEGERKYGVVKFGGVASDEVVGEKVDKLKKSLEKDGYKVV 173 (200)
Q Consensus 129 ~V~i~~~p~~~v~v~~F~G~~~~~~~~~~~~~L~~~L~~~g~~~~ 173 (200)
.|.|.-..+..-.-....--.+-..++++...|++.|.+.|+...
T Consensus 28 ~v~l~~~~~~l~v~~~~~~~~~~~~L~~~~~~L~~~L~~~G~~~~ 72 (85)
T PF02120_consen 28 EVKLRLQGGNLSVQFTAENPETKELLRQNLPELKERLQAQGLEVV 72 (85)
T ss_dssp EEEEEEETTEEEEEEE--SSHHHHHHHHTHHHHHHHHHTTT-EEE
T ss_pred EEEEEEeCCEEEEEEEECCHHHHHHHHHHHHHHHHHHHHCCCCeE
Confidence 366766666333333333334778899999999999999999875
No 16
>PRK13731 conjugal transfer surface exclusion protein TraT; Provisional
Probab=33.67 E-value=85 Score=26.83 Aligned_cols=52 Identities=23% Similarity=0.248 Sum_probs=33.8
Q ss_pred CCeEEEEeCCeEEEEEEecCccChHHHHHHHHHHHHHHHhCCCeeeCcEEEEEe
Q 028987 128 ERVVIREEGERKYGVVKFGGVASDEVVGEKVDKLKKSLEKDGYKVVGQFLLARY 181 (200)
Q Consensus 128 ~~V~i~~~p~~~v~v~~F~G~~~~~~~~~~~~~L~~~L~~~g~~~~~~~~~a~Y 181 (200)
+.|+|+...+++|||.-= - .++.++..-..++...|...|+.+.+.+.-|.|
T Consensus 41 ~TIfLdP~~~ktVyv~vr-N-TSd~~~~~l~~~i~~~L~~kGY~iv~~P~~A~Y 92 (243)
T PRK13731 41 ETIWLEPASERTVFLQIK-N-TSDKDMSGLQGKIADAVKAKGYQVVTSPDKAYY 92 (243)
T ss_pred ccEEEcCCCCceEEEEEe-e-CCCcchHHHHHHHHHHHHhCCeEEecChhhcee
Confidence 345555555677776531 1 235666667788999999999998665444444
No 17
>TIGR01752 flav_long flavodoxin, long chain. Flavodoxins are small redox-active proteins with a flavin mononucleotide (FMN) prosthetic group. They can act in nitrogen fixation by nitrogenase, in sulfite reduction, and light-dependent NADP+ reduction in during photosynthesis, among other roles. This model describes the long chain type, typical for nitrogen fixation but associated with pyruvate formate-lyase activation and cobalamin-dependent methionine synthase activity in E. coli.
Probab=26.49 E-value=1.4e+02 Score=23.31 Aligned_cols=50 Identities=18% Similarity=0.240 Sum_probs=37.4
Q ss_pred eCCeEEEEEEecCccC-hHHHHHHHHHHHHHHHhCCCeeeCcEEEEEeCCC
Q 028987 135 EGERKYGVVKFGGVAS-DEVVGEKVDKLKKSLEKDGYKVVGQFLLARYNPP 184 (200)
Q Consensus 135 ~p~~~v~v~~F~G~~~-~~~~~~~~~~L~~~L~~~g~~~~~~~~~a~Yd~P 184 (200)
.....+++...+|... ...+..-.+.|.+.|++.|....+.+.+.||+.-
T Consensus 76 l~gk~v~~fg~g~~~~y~~~f~~a~~~l~~~l~~~G~~~ig~~~~~gy~~~ 126 (167)
T TIGR01752 76 FTGKTVALFGLGDQEGYSETFCDGMGILYDKIKARGAKVVGFWPTDGYHFE 126 (167)
T ss_pred CCCCEEEEEecCCCCcccHHHHHHHHHHHHHHHHcCCeEEceecCCCcccc
Confidence 3467888888776432 2456667788999999999999888888888763
No 18
>PF03366 YEATS: YEATS family; InterPro: IPR005033 Named the YEATS family, after `YNK7', `ENL', `AF-9', and `TFIIF small subunit', this family also contains the GAS41 protein. All these proteins are thought to have a transcription stimulatory activity.; GO: 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus; PDB: 3QRL_A 2L7E_A 3FK3_C 3RLS_A.
Probab=24.64 E-value=64 Score=22.76 Aligned_cols=21 Identities=29% Similarity=0.442 Sum_probs=15.0
Q ss_pred CccCCCCeEEEeeC-CCeEEEE
Q 028987 8 ISVETPKYEVIQST-FDYEIRK 28 (200)
Q Consensus 8 ~~~e~P~y~vl~~~-~~yEvR~ 28 (200)
+..+.|+|+|.+.. ++|+|+.
T Consensus 36 r~v~~pPFevte~GWGeF~i~I 57 (84)
T PF03366_consen 36 RVVTKPPFEVTETGWGEFEIPI 57 (84)
T ss_dssp EECSSTTEEEEEEESS--EEEE
T ss_pred eEecCCCCEEEEeEeccEEEEE
Confidence 46789999999985 7777763
No 19
>KOG1386 consensus Nucleoside phosphatase [Nucleotide transport and metabolism]
Probab=22.00 E-value=1.6e+02 Score=27.85 Aligned_cols=63 Identities=19% Similarity=0.219 Sum_probs=43.3
Q ss_pred CeeEEEEEEeecCccCccCCCCCCCCCeEEEE--eCCeEEEEEEecCccChHHHHHHHHHHHHHHHhC
Q 028987 103 KKMVTMQFVLPEKYQKAEEAPKPVDERVVIRE--EGERKYGVVKFGGVASDEVVGEKVDKLKKSLEKD 168 (200)
Q Consensus 103 ~~~~tmsF~lP~~~~~~~~~P~P~d~~V~i~~--~p~~~v~v~~F~G~~~~~~~~~~~~~L~~~L~~~ 168 (200)
.....|.|..|.+- +.-|.-....+.+-. .-..++||.+|-||--++..++....|.+.|...
T Consensus 171 GAS~QItFe~~~~~---e~~~~~~~~~i~~G~~~~~~Y~ly~~SfLgyG~N~A~~ry~~~Ll~~~~n~ 235 (501)
T KOG1386|consen 171 GASTQITFEPPNQQ---EEVPKENLQTINYGNDNLVKYRLYVHSFLGYGANEALDRYLAMLLEKLPNK 235 (501)
T ss_pred CceeEEEEecCccc---cccchhhhhheecCCCCceEEEEEEEeecccchhHHHHHHHHHHHHhcccc
Confidence 34679999999642 333433344555551 1247999999999998888888888888666444
No 20
>PRK11615 hypothetical protein; Provisional
Probab=21.89 E-value=4.5e+02 Score=21.53 Aligned_cols=63 Identities=11% Similarity=0.174 Sum_probs=40.4
Q ss_pred EEEEEEeecCccCccCCCCCCCCCeEEEEeCCeEEEEEEecCccChHHHHHHHHHHHHHHHhC
Q 028987 106 VTMQFVLPEKYQKAEEAPKPVDERVVIREEGERKYGVVKFGGVASDEVVGEKVDKLKKSLEKD 168 (200)
Q Consensus 106 ~tmsF~lP~~~~~~~~~P~P~d~~V~i~~~p~~~v~v~~F~G~~~~~~~~~~~~~L~~~L~~~ 168 (200)
-.++|.||..|.+....--......++..-+...=+|+.--|-.+.+....-+.+|.+..+..
T Consensus 48 GKl~FtLPag~sdqsgk~Gtq~nn~~vYad~tg~kavIVi~gD~~~~~Ld~la~rl~~qQr~r 110 (185)
T PRK11615 48 GKLSFTLPADMSDQSGKLGTQANNMHVYADATGQKAVIVILGDDTNEDLAVLAKRLEDQQRSR 110 (185)
T ss_pred cEEEEEcCCccccccccccccccceEEEEcCCCCEEEEEEeCCCChhhHHHHHHHHHHHHHhh
Confidence 478999999997322222223345666665644445555567777777777777887777654
No 21
>PF09413 DUF2007: Domain of unknown function (DUF2007); InterPro: IPR018551 This is a family of proteins with unknown function. ; PDB: 2HFV_A.
Probab=21.19 E-value=1.1e+02 Score=19.80 Aligned_cols=39 Identities=23% Similarity=0.218 Sum_probs=20.3
Q ss_pred HHHHHHHHHHHHhCCCeee--CcE--EEEEeCCCCCCCCCCeeeEEEE
Q 028987 155 GEKVDKLKKSLEKDGYKVV--GQF--LLARYNPPWTLPPFRTNEVMIP 198 (200)
Q Consensus 155 ~~~~~~L~~~L~~~g~~~~--~~~--~~a~Yd~P~~~p~~R~NEV~i~ 198 (200)
.-++..++..|+++|+... +.. ..+|| +|... + =+|||+
T Consensus 9 ~~ea~~i~~~L~~~gI~~~v~~~~~~~~~g~-~g~~~-~---~~v~V~ 51 (67)
T PF09413_consen 9 PIEAELIKGLLEENGIPAFVKNEHMSGYAGE-PGTGG-Q---VEVYVP 51 (67)
T ss_dssp HHHHHHHHHHHHHTT--EE--S----SS----S--SS-S---EEEEEE
T ss_pred HHHHHHHHHHHHhCCCcEEEECCccchhhcc-cCccC-c---eEEEEC
Confidence 3468889999999999862 221 22566 55554 2 677765
No 22
>PF14526 Cass2: Integron-associated effector binding protein; PDB: 3GK6_A.
Probab=20.74 E-value=3.5e+02 Score=19.91 Aligned_cols=144 Identities=19% Similarity=0.156 Sum_probs=63.2
Q ss_pred EEEEeCCceEEEEEeCCCCccC----chhhHHHHHHHhhcccCCCCCCCCCcccCCCCeEEecCCchhhhhccCCceecc
Q 028987 25 EIRKYAPSVVAEVTYDPSTFKG----NKDGGFSVLANYIGALGNPQNTKPEKIAMTAPVITKSSPEEEKIAMTAPVVTKS 100 (200)
Q Consensus 25 EvR~Y~~~~wa~t~~~~~~~~~----a~~~gF~~L~~YI~~~g~G~N~~~~~i~MT~PV~~~~~~~~~~~~mt~pv~~~~ 100 (200)
||-.-++.+.+........... .....+.+|++... -.| +....++..-.... +
T Consensus 1 ~iv~~~~~~vig~~~r~~~~~~~~~~~i~~lw~~~~~~~~----~~~-----~~~~~~~y~vy~~y-e------------ 58 (150)
T PF14526_consen 1 EIVELPSFTVIGIRVRTPNYDEDSNKKIGELWQEFFKEGK----LPN-----IKPDGPIYGVYHDY-E------------ 58 (150)
T ss_dssp EEEEE--EEEEEEEEEE-HHHHHTT--HHHHHHHHHHHT-----GGG-------TT--EEEEEE---S------------
T ss_pred CcEEeCCEEEEEEEEEecChhhhhhhHHHHHHHHHHHhch----hhh-----cCCCCCEEEEEecc-c------------
Confidence 3555666666666654433211 12334555555441 112 33446666654321 0
Q ss_pred CCCeeEEEEEEeecCccCccCCCCCCCCCeEEEEeCCeEEEEEEecCccChHHHHHHHHHHHHHHHh--CCCeeeCcEEE
Q 028987 101 DEKKMVTMQFVLPEKYQKAEEAPKPVDERVVIREEGERKYGVVKFGGVASDEVVGEKVDKLKKSLEK--DGYKVVGQFLL 178 (200)
Q Consensus 101 ~~~~~~tmsF~lP~~~~~~~~~P~P~d~~V~i~~~p~~~v~v~~F~G~~~~~~~~~~~~~L~~~L~~--~g~~~~~~~~~ 178 (200)
..++.+++..-+|-+-. ...|. .....++|+..+++..+.|-.. +.+.+--.++.+++.+ .++.....+.+
T Consensus 59 ~~~~~~~~~vg~~v~~~--~~~~~----~~~~~~ip~~~Y~~~~~~G~~~-~~i~~~w~~i~~~~~~~~~~~~r~~~~df 131 (150)
T PF14526_consen 59 SYEGDYDYEVGVPVKED--DEVPE----GFVIIEIPAGKYAVFTVKGPYP-EAIIEAWQKIWEWFEEENNDYERAYGPDF 131 (150)
T ss_dssp STTS-EEEEEEESS--T--TTSTT-----EE-EEE--EEEEEEEEESSTT-HHHHHHHHHHHHHH--------B--SEEE
T ss_pred cCCCCeEEEEEEEecCC--ccCCC----CceEEEECCEeEEEEEEeCCCh-HHHHHHHHHHHHHHHhhCCCceeccCCCe
Confidence 01345666666665432 23343 3788889999999999988544 3455666677777764 44554444555
Q ss_pred EEeCCCCCCCCCCeeeEEEEe
Q 028987 179 ARYNPPWTLPPFRTNEVMIPV 199 (200)
Q Consensus 179 a~Yd~P~~~p~~R~NEV~i~v 199 (200)
-.|..-... .-.=||||+|
T Consensus 132 E~Y~~~~~~--~~~~eIyIpI 150 (150)
T PF14526_consen 132 EVYPEDPSE--NYEVEIYIPI 150 (150)
T ss_dssp EE--SSS------EEEEEEEB
T ss_pred EEEcCCCCc--eeEEEEEEEC
Confidence 556333221 3456888886
No 23
>PRK12359 flavodoxin FldB; Provisional
Probab=20.39 E-value=2.4e+02 Score=22.53 Aligned_cols=53 Identities=17% Similarity=0.158 Sum_probs=41.2
Q ss_pred eCCeEEEEEEecCcc-ChHHHHHHHHHHHHHHHhCCCeeeCcEEEEEeCCCCCC
Q 028987 135 EGERKYGVVKFGGVA-SDEVVGEKVDKLKKSLEKDGYKVVGQFLLARYNPPWTL 187 (200)
Q Consensus 135 ~p~~~v~v~~F~G~~-~~~~~~~~~~~L~~~L~~~g~~~~~~~~~a~Yd~P~~~ 187 (200)
..+.++++-..+... -...+...+..|.+.|.+.|-.+.+.+...||+--.+.
T Consensus 77 l~gK~vAlFG~Gd~~~y~~~f~~a~~~l~~~l~~~Ga~ivG~~~~~gY~f~~s~ 130 (172)
T PRK12359 77 LEGKIVALYGMGDQLGYGEWFLDALGMLHDKLAPKGVKFVGYWPTEGYEFTSSK 130 (172)
T ss_pred CCCCEEEEEeCCCCccchHHHHHHHHHHHHHHHhCCCeEEeeEeCCCcccccce
Confidence 457788877766643 34678888999999999999999988888888855443
No 24
>PF05818 TraT: Enterobacterial TraT complement resistance protein; InterPro: IPR008874 The traT gene is one of the F factor transfer genes and encodes an outer membrane protein which is involved in interactions between Escherichia coli and its surroundings []. The protein plays a role in preventing unproductive conjugation between bacteria carrying like plasmids.; GO: 0046999 regulation of conjugation, 0019867 outer membrane
Probab=20.14 E-value=1.6e+02 Score=24.77 Aligned_cols=26 Identities=27% Similarity=0.392 Sum_probs=18.8
Q ss_pred HHHHHHHHHHHhCCCeeeCcEEEEEe
Q 028987 156 EKVDKLKKSLEKDGYKVVGQFLLARY 181 (200)
Q Consensus 156 ~~~~~L~~~L~~~g~~~~~~~~~a~Y 181 (200)
.-...|...|...|..+...+.-|.|
T Consensus 37 ~l~~~i~~~L~~kGY~vv~~P~~A~Y 62 (215)
T PF05818_consen 37 NLESQIISALQAKGYQVVDDPDEAHY 62 (215)
T ss_pred chHHHHHHHHHHCCCEEecChhhCeE
Confidence 46678899999999998654443333
Done!