Query 027679
Match_columns 220
No_of_seqs 274 out of 1335
Neff 7.2
Searched_HMMs 46136
Date Fri Mar 29 13:33:33 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/027679.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/027679hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 COG0545 FkpA FKBP-type peptidy 100.0 2.7E-31 5.9E-36 218.2 13.3 114 94-220 92-205 (205)
2 KOG0544 FKBP-type peptidyl-pro 100.0 8E-29 1.7E-33 179.4 12.1 106 104-220 2-108 (108)
3 PRK11570 peptidyl-prolyl cis-t 99.9 1.3E-26 2.9E-31 194.0 14.6 114 94-220 93-206 (206)
4 TIGR03516 ppisom_GldI peptidyl 99.9 2.9E-26 6.3E-31 187.8 15.5 114 95-220 61-176 (177)
5 KOG0552 FKBP-type peptidyl-pro 99.9 1E-26 2.2E-31 195.0 12.9 109 99-220 116-226 (226)
6 KOG0549 FKBP-type peptidyl-pro 99.9 2.7E-26 5.9E-31 185.2 11.2 106 103-219 68-175 (188)
7 PRK10902 FKBP-type peptidyl-pr 99.9 4.9E-24 1.1E-28 184.8 14.8 112 94-219 137-248 (269)
8 PF00254 FKBP_C: FKBP-type pep 99.9 1.3E-21 2.8E-26 143.7 11.8 92 116-217 3-94 (94)
9 PRK15095 FKBP-type peptidyl-pr 99.7 1.8E-16 3.8E-21 127.6 9.7 72 117-194 4-75 (156)
10 KOG0543 FKBP-type peptidyl-pro 99.6 2.4E-15 5.1E-20 135.0 13.2 104 102-219 83-189 (397)
11 COG1047 SlpA FKBP-type peptidy 99.6 5.1E-15 1.1E-19 119.9 10.4 72 117-194 2-73 (174)
12 PRK10737 FKBP-type peptidyl-pr 99.5 4.6E-14 1E-18 117.1 9.7 71 117-194 2-72 (196)
13 KOG0543 FKBP-type peptidyl-pro 99.1 2.9E-10 6.2E-15 102.5 6.8 81 112-218 2-83 (397)
14 TIGR00115 tig trigger factor. 98.9 1.1E-08 2.3E-13 93.8 11.1 84 117-219 146-229 (408)
15 PRK01490 tig trigger factor; P 98.8 3.8E-08 8.2E-13 91.0 11.1 84 117-219 157-240 (435)
16 COG0544 Tig FKBP-type peptidyl 98.5 3.4E-07 7.4E-12 84.9 9.2 83 118-219 158-240 (441)
17 KOG0545 Aryl-hydrocarbon recep 97.6 1.8E-05 4E-10 68.0 1.1 80 101-186 8-91 (329)
18 KOG0549 FKBP-type peptidyl-pro 96.7 0.00072 1.6E-08 55.4 1.5 41 150-196 1-41 (188)
19 PHA02122 hypothetical protein 50.8 28 0.0006 23.2 3.4 21 119-140 39-59 (65)
20 PF01272 GreA_GreB: Transcript 45.6 29 0.00062 24.0 3.2 24 157-186 42-65 (77)
21 PLN00042 photosystem II oxygen 42.2 36 0.00079 29.6 3.9 30 39-73 33-62 (260)
22 PF01346 FKBP_N: Domain amino 31.5 43 0.00093 25.1 2.4 16 94-109 109-124 (124)
23 TIGR01461 greB transcription e 30.9 96 0.0021 24.7 4.5 24 157-186 119-142 (156)
24 PRK00226 greA transcription el 30.4 58 0.0013 25.8 3.1 25 156-186 121-145 (157)
25 PF12690 BsuPI: Intracellular 27.7 2.1E+02 0.0045 20.2 5.3 13 174-186 56-68 (82)
26 TIGR01462 greA transcription e 26.0 1.9E+02 0.004 22.7 5.3 25 156-186 116-140 (151)
27 PRK05753 nucleoside diphosphat 24.4 1.5E+02 0.0033 23.0 4.5 25 156-186 90-114 (137)
28 PRK05892 nucleoside diphosphat 22.4 1.9E+02 0.0042 23.0 4.8 24 157-186 121-144 (158)
29 PRK01885 greB transcription el 21.6 1.5E+02 0.0033 23.6 4.0 23 158-186 122-144 (157)
No 1
>COG0545 FkpA FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]
Probab=99.97 E-value=2.7e-31 Score=218.22 Aligned_cols=114 Identities=50% Similarity=0.885 Sum_probs=106.9
Q ss_pred CCCCeEECCCCeEEEEEEecCCCCCCCCCEEEEEEEEEEcCCcEEeccCCCCCceEEEcccccchhhHHHhhcCCCCCCC
Q 027679 94 SPCELTVAPSGLAFCDKVVGVGPEAVKGQLIKAHYVGKLENGKVFDSSYNRGKPLIFRLGVGEVIKGWDEGILGGDGIPP 173 (220)
Q Consensus 94 ~~~~~~~~~sGl~y~~l~~G~G~~~~~gd~V~v~Y~~~~~~G~vfdst~~~~~p~~f~lG~~~~i~Gl~~aL~g~~~l~~ 173 (220)
+...++++++|+.|.+++.|.|..|..+|.|.|||++++.||++||+++++++|+.|.+| .+|+||.++|.+
T Consensus 92 k~~~v~~~~sgl~y~~~~~G~G~~~~~~~~V~vhY~G~l~~G~vFDsS~~rg~p~~f~l~--~vI~Gw~egl~~------ 163 (205)
T COG0545 92 KEKGVKTLPSGLQYKVLKAGDGAAPKKGDTVTVHYTGTLIDGTVFDSSYDRGQPAEFPLG--GVIPGWDEGLQG------ 163 (205)
T ss_pred ccCCceECCCCcEEEEEeccCCCCCCCCCEEEEEEEEecCCCCccccccccCCCceeecC--CeeehHHHHHhh------
Confidence 456688899999999999999999999999999999999999999999999999999996 999999999766
Q ss_pred ccCCcEEEEEECCCCCCCCCCCCCCCCCCCCCCCCeEEEEEEEeeeC
Q 027679 174 MLTGGKRILKIPPELAYGMRGAGCRGGSCIIPPDSVLMFDVEFVGKA 220 (220)
Q Consensus 174 Mk~Ge~~~v~IP~~layG~~g~~~~~~~~~Ip~~s~Lvf~VeLv~i~ 220 (220)
|++|++|+++||+++|||.+|.+. .||||++|+|||+|++|.
T Consensus 164 M~vG~k~~l~IP~~laYG~~g~~g-----~Ippns~LvFeVeLl~v~ 205 (205)
T COG0545 164 MKVGGKRKLTIPPELAYGERGVPG-----VIPPNSTLVFEVELLDVK 205 (205)
T ss_pred CCCCceEEEEeCchhccCcCCCCC-----CCCCCCeEEEEEEEEecC
Confidence 999999999999999999999752 599999999999999973
No 2
>KOG0544 consensus FKBP-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]
Probab=99.96 E-value=8e-29 Score=179.43 Aligned_cols=106 Identities=48% Similarity=0.805 Sum_probs=100.0
Q ss_pred CeEEEEEEecCC-CCCCCCCEEEEEEEEEEcCCcEEeccCCCCCceEEEcccccchhhHHHhhcCCCCCCCccCCcEEEE
Q 027679 104 GLAFCDKVVGVG-PEAVKGQLIKAHYVGKLENGKVFDSSYNRGKPLIFRLGVGEVIKGWDEGILGGDGIPPMLTGGKRIL 182 (220)
Q Consensus 104 Gl~y~~l~~G~G-~~~~~gd~V~v~Y~~~~~~G~vfdst~~~~~p~~f~lG~~~~i~Gl~~aL~g~~~l~~Mk~Ge~~~v 182 (220)
|+...++..|+| ..|+.||.|++||++.+.||+.|||+.+++.|+.|.+|.+++|.||++++.. |.+|++.++
T Consensus 2 Gv~~~~i~~Gdg~tfpK~Gqtvt~hYtg~L~dG~kfDSs~dr~kPfkf~IGkgeVIkGwdegv~q------msvGekakL 75 (108)
T KOG0544|consen 2 GVEKQVISPGDGRTFPKKGQTVTVHYTGTLQDGKKFDSSRDRGKPFKFKIGKGEVIKGWDEGVAQ------MSVGEKAKL 75 (108)
T ss_pred CceeEEeeCCCCcccCCCCCEEEEEEEeEecCCcEeecccccCCCeeEEecCcceeechhhcchh------cccccccee
Confidence 678899999999 6799999999999999999999999999999999999999999999999776 999999999
Q ss_pred EECCCCCCCCCCCCCCCCCCCCCCCCeEEEEEEEeeeC
Q 027679 183 KIPPELAYGMRGAGCRGGSCIIPPDSVLMFDVEFVGKA 220 (220)
Q Consensus 183 ~IP~~layG~~g~~~~~~~~~Ip~~s~Lvf~VeLv~i~ 220 (220)
.|+|++|||.+|.+. .||||++|+|||||++|.
T Consensus 76 ti~pd~aYG~~G~p~-----~IppNatL~FdVEll~v~ 108 (108)
T KOG0544|consen 76 TISPDYAYGPRGHPG-----GIPPNATLVFDVELLKVN 108 (108)
T ss_pred eeccccccCCCCCCC-----ccCCCcEEEEEEEEEecC
Confidence 999999999999654 899999999999999874
No 3
>PRK11570 peptidyl-prolyl cis-trans isomerase; Provisional
Probab=99.94 E-value=1.3e-26 Score=193.99 Aligned_cols=114 Identities=43% Similarity=0.664 Sum_probs=106.2
Q ss_pred CCCCeEECCCCeEEEEEEecCCCCCCCCCEEEEEEEEEEcCCcEEeccCCCCCceEEEcccccchhhHHHhhcCCCCCCC
Q 027679 94 SPCELTVAPSGLAFCDKVVGVGPEAVKGQLIKAHYVGKLENGKVFDSSYNRGKPLIFRLGVGEVIKGWDEGILGGDGIPP 173 (220)
Q Consensus 94 ~~~~~~~~~sGl~y~~l~~G~G~~~~~gd~V~v~Y~~~~~~G~vfdst~~~~~p~~f~lG~~~~i~Gl~~aL~g~~~l~~ 173 (220)
....++++++|++|++++.|+|..|..+|.|.|||++++.||++||++|.++.|+.|.++ .+++||+++|.+
T Consensus 93 k~~gv~~t~sGl~y~vi~~G~G~~p~~~d~V~v~Y~g~l~dG~vfdss~~~g~P~~f~l~--~vipG~~eaL~~------ 164 (206)
T PRK11570 93 KKEGVNSTESGLQFRVLTQGEGAIPARTDRVRVHYTGKLIDGTVFDSSVARGEPAEFPVN--GVIPGWIEALTL------ 164 (206)
T ss_pred hcCCcEECCCCcEEEEEeCCCCCCCCCCCEEEEEEEEEECCCCEEEeccCCCCCeEEEee--chhhHHHHHHcC------
Confidence 356788999999999999999999999999999999999999999999988899999994 699999999877
Q ss_pred ccCCcEEEEEECCCCCCCCCCCCCCCCCCCCCCCCeEEEEEEEeeeC
Q 027679 174 MLTGGKRILKIPPELAYGMRGAGCRGGSCIIPPDSVLMFDVEFVGKA 220 (220)
Q Consensus 174 Mk~Ge~~~v~IP~~layG~~g~~~~~~~~~Ip~~s~Lvf~VeLv~i~ 220 (220)
|++|++++|+||++++||+.|.+. .||||++|+|+|||++|.
T Consensus 165 M~~G~k~~~~IP~~lAYG~~g~~~-----~Ipp~s~Lif~veLl~i~ 206 (206)
T PRK11570 165 MPVGSKWELTIPHELAYGERGAGA-----SIPPFSTLVFEVELLEIL 206 (206)
T ss_pred CCCCCEEEEEECHHHcCCCCCCCC-----CcCCCCeEEEEEEEEEEC
Confidence 999999999999999999998753 799999999999999983
No 4
>TIGR03516 ppisom_GldI peptidyl-prolyl isomerase, gliding motility-associated. Members of this protein family are exclusive to the Bacteroidetes phylum (previously Cytophaga-Flavobacteria-Bacteroides). GldI is a FKBP-type peptidyl-prolyl cis-trans isomerase (pfam00254) linked to a type of rapid surface gliding motility found in certain Bacteroidetes, such as Flavobacterium johnsoniae and Cytophaga hutchinsonii. Knockout of this gene abolishes the gliding phenotype. Gliding motility appears closely linked to chitin utilization in the model species Flavobacterium johnsoniae. This family is only found in Bacteroidetes containing the suite of genes proposed to confer the gliding motility phenotype.
Probab=99.94 E-value=2.9e-26 Score=187.80 Aligned_cols=114 Identities=19% Similarity=0.313 Sum_probs=103.8
Q ss_pred CCCeEECCCCeEEEEEEe--cCCCCCCCCCEEEEEEEEEEcCCcEEeccCCCCCceEEEcccccchhhHHHhhcCCCCCC
Q 027679 95 PCELTVAPSGLAFCDKVV--GVGPEAVKGQLIKAHYVGKLENGKVFDSSYNRGKPLIFRLGVGEVIKGWDEGILGGDGIP 172 (220)
Q Consensus 95 ~~~~~~~~sGl~y~~l~~--G~G~~~~~gd~V~v~Y~~~~~~G~vfdst~~~~~p~~f~lG~~~~i~Gl~~aL~g~~~l~ 172 (220)
...+.++++|++|.+++. |+|..|+.||.|.+||++++.||++|+++++. .|+.|.+|.+++++||+++|.+
T Consensus 61 ~~~~~~t~sGl~Y~v~~~~~g~g~~p~~gd~V~v~Y~~~~~dG~v~~ss~~~-~P~~f~vg~~~vi~Gl~e~L~~----- 134 (177)
T TIGR03516 61 IVKYETSQNGFWYYYNQKDTGEGTTPEFGDLVTFEYDIRALDGDVIYSEEEL-GPQTYKVDQQDLFSGLRDGLKL----- 134 (177)
T ss_pred CCCceECCCccEEEEEEecCCCCCcCCCCCEEEEEEEEEeCCCCEEEeCCCC-CCEEEEeCCcchhHHHHHHHcC-----
Confidence 356688999999999877 67778999999999999999999999999864 6999999999999999999877
Q ss_pred CccCCcEEEEEECCCCCCCCCCCCCCCCCCCCCCCCeEEEEEEEeeeC
Q 027679 173 PMLTGGKRILKIPPELAYGMRGAGCRGGSCIIPPDSVLMFDVEFVGKA 220 (220)
Q Consensus 173 ~Mk~Ge~~~v~IP~~layG~~g~~~~~~~~~Ip~~s~Lvf~VeLv~i~ 220 (220)
|++||+++|+||+++|||.+|.+. .||||++|+|+|+|++|.
T Consensus 135 -Mk~Ge~~~~~iP~~~AYG~~g~~~-----~Ippns~L~f~IeL~~i~ 176 (177)
T TIGR03516 135 -MKEGETATFLFPSHKAYGYYGDQN-----KIGPNLPIISTVTLLNIK 176 (177)
T ss_pred -CCCCCEEEEEECHHHcCCCCCCCC-----CcCcCCcEEEEEEEEEec
Confidence 999999999999999999998753 799999999999999973
No 5
>KOG0552 consensus FKBP-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]
Probab=99.94 E-value=1e-26 Score=195.03 Aligned_cols=109 Identities=56% Similarity=1.015 Sum_probs=103.7
Q ss_pred EECCCCeEEEEEEecCCCCCCCCCEEEEEEEEEEc-CCcEEeccCCCCCceE-EEcccccchhhHHHhhcCCCCCCCccC
Q 027679 99 TVAPSGLAFCDKVVGVGPEAVKGQLIKAHYVGKLE-NGKVFDSSYNRGKPLI-FRLGVGEVIKGWDEGILGGDGIPPMLT 176 (220)
Q Consensus 99 ~~~~sGl~y~~l~~G~G~~~~~gd~V~v~Y~~~~~-~G~vfdst~~~~~p~~-f~lG~~~~i~Gl~~aL~g~~~l~~Mk~ 176 (220)
.++++|++|++++.|+|+.+..|+.|.+||.+++. +|++||+++. +.|+. |.+|.+++|+||+.++.| |++
T Consensus 116 ~tl~~Gl~y~D~~vG~G~~a~~G~rV~v~Y~Gkl~~~GkvFd~~~~-~kp~~~f~lg~g~VIkG~d~gv~G------Mkv 188 (226)
T KOG0552|consen 116 RTLPGGLRYEDLRVGSGPSAKKGKRVSVRYIGKLKGNGKVFDSNFG-GKPFKLFRLGSGEVIKGWDVGVEG------MKV 188 (226)
T ss_pred eecCCCcEEEEEEecCCCCCCCCCEEEEEEEEEecCCCeEeecccC-CCCccccccCCCCCCchHHHhhhh------hcc
Confidence 57899999999999999999999999999999999 9999999985 47888 999999999999999999 999
Q ss_pred CcEEEEEECCCCCCCCCCCCCCCCCCCCCCCCeEEEEEEEeeeC
Q 027679 177 GGKRILKIPPELAYGMRGAGCRGGSCIIPPDSVLMFDVEFVGKA 220 (220)
Q Consensus 177 Ge~~~v~IP~~layG~~g~~~~~~~~~Ip~~s~Lvf~VeLv~i~ 220 (220)
|++|+|+|||++|||.++.+ .||||++|+|||||+.|.
T Consensus 189 GGkRrviIPp~lgYg~~g~~------~IppnstL~fdVEL~~v~ 226 (226)
T KOG0552|consen 189 GGKRRVIIPPELGYGKKGVP------EIPPNSTLVFDVELLSVK 226 (226)
T ss_pred CCeeEEEeCccccccccCcC------cCCCCCcEEEEEEEEecC
Confidence 99999999999999999987 799999999999999873
No 6
>KOG0549 consensus FKBP-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]
Probab=99.94 E-value=2.7e-26 Score=185.23 Aligned_cols=106 Identities=51% Similarity=0.865 Sum_probs=95.1
Q ss_pred CCeEEEEEEe--cCCCCCCCCCEEEEEEEEEEcCCcEEeccCCCCCceEEEcccccchhhHHHhhcCCCCCCCccCCcEE
Q 027679 103 SGLAFCDKVV--GVGPEAVKGQLIKAHYVGKLENGKVFDSSYNRGKPLIFRLGVGEVIKGWDEGILGGDGIPPMLTGGKR 180 (220)
Q Consensus 103 sGl~y~~l~~--G~G~~~~~gd~V~v~Y~~~~~~G~vfdst~~~~~p~~f~lG~~~~i~Gl~~aL~g~~~l~~Mk~Ge~~ 180 (220)
+.+...++.. .-..+.+.||.|.+||++.+.||++|||||++++|+.|++|.+++|+||+++|.| |++||+|
T Consensus 68 ~~l~I~v~~~p~~C~~kak~GD~l~~HY~g~leDGt~fdSS~~rg~P~~f~LG~gqVIkG~Dqgl~g------MCvGEkR 141 (188)
T KOG0549|consen 68 EELQIGVLKKPEECPEKAKKGDTLHVHYTGSLEDGTKFDSSYSRGAPFTFTLGTGQVIKGWDQGLLG------MCVGEKR 141 (188)
T ss_pred CceeEEEEECCccccccccCCCEEEEEEEEEecCCCEEeeeccCCCCEEEEeCCCceeccHhHHhhh------hCcccce
Confidence 4455554443 2456688999999999999999999999999999999999999999999999999 9999999
Q ss_pred EEEECCCCCCCCCCCCCCCCCCCCCCCCeEEEEEEEeee
Q 027679 181 ILKIPPELAYGMRGAGCRGGSCIIPPDSVLMFDVEFVGK 219 (220)
Q Consensus 181 ~v~IP~~layG~~g~~~~~~~~~Ip~~s~Lvf~VeLv~i 219 (220)
++.|||+++||++|.+. .||++++|+|||||+++
T Consensus 142 kl~IPp~LgYG~~G~~~-----~IP~~A~LiFdiELv~i 175 (188)
T KOG0549|consen 142 KLIIPPHLGYGERGAPP-----KIPGDAVLIFDIELVKI 175 (188)
T ss_pred EEecCccccCccCCCCC-----CCCCCeeEEEEEEEEEe
Confidence 99999999999999853 69999999999999987
No 7
>PRK10902 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional
Probab=99.91 E-value=4.9e-24 Score=184.80 Aligned_cols=112 Identities=42% Similarity=0.728 Sum_probs=104.5
Q ss_pred CCCCeEECCCCeEEEEEEecCCCCCCCCCEEEEEEEEEEcCCcEEeccCCCCCceEEEcccccchhhHHHhhcCCCCCCC
Q 027679 94 SPCELTVAPSGLAFCDKVVGVGPEAVKGQLIKAHYVGKLENGKVFDSSYNRGKPLIFRLGVGEVIKGWDEGILGGDGIPP 173 (220)
Q Consensus 94 ~~~~~~~~~sGl~y~~l~~G~G~~~~~gd~V~v~Y~~~~~~G~vfdst~~~~~p~~f~lG~~~~i~Gl~~aL~g~~~l~~ 173 (220)
....++++++|++|+++++|+|..|..||.|.|||++++.||++|++++.++.|+.|.+ +.+++||+++|.+
T Consensus 137 k~~gv~~t~sGl~y~Vi~~G~G~~p~~gD~V~V~Y~g~l~dG~vfdss~~~g~p~~f~l--~~vipG~~EaL~~------ 208 (269)
T PRK10902 137 KEKGVKTTSTGLLYKVEKEGTGEAPKDSDTVVVNYKGTLIDGKEFDNSYTRGEPLSFRL--DGVIPGWTEGLKN------ 208 (269)
T ss_pred cCCCcEECCCccEEEEEeCCCCCCCCCCCEEEEEEEEEeCCCCEeeccccCCCceEEec--CCcchHHHHHHhc------
Confidence 35568899999999999999999999999999999999999999999998889999998 4699999999877
Q ss_pred ccCCcEEEEEECCCCCCCCCCCCCCCCCCCCCCCCeEEEEEEEeee
Q 027679 174 MLTGGKRILKIPPELAYGMRGAGCRGGSCIIPPDSVLMFDVEFVGK 219 (220)
Q Consensus 174 Mk~Ge~~~v~IP~~layG~~g~~~~~~~~~Ip~~s~Lvf~VeLv~i 219 (220)
|++|++++|+||++++||..+.+ .||||++|+|+|+|++|
T Consensus 209 Mk~Gek~~l~IP~~laYG~~g~~------gIppns~LvfeVeLl~V 248 (269)
T PRK10902 209 IKKGGKIKLVIPPELAYGKAGVP------GIPANSTLVFDVELLDV 248 (269)
T ss_pred CCCCcEEEEEECchhhCCCCCCC------CCCCCCcEEEEEEEEEe
Confidence 99999999999999999998764 69999999999999987
No 8
>PF00254 FKBP_C: FKBP-type peptidyl-prolyl cis-trans isomerase; InterPro: IPR001179 Synonym(s): Peptidylprolyl cis-trans isomerase FKBP-type peptidylprolyl isomerases (5.2.1.8 from EC) in vertebrates, are receptors for the two immunosuppressants, FK506 and rapamycin. The drugs inhibit T cell proliferation by arresting two distinct cytoplasmic signal transmission pathways. Peptidylprolyl isomerases accelerate protein folding by catalysing the cis-trans isomerisation of proline imidic peptide bonds in oligopeptides. These proteins are found in a variety of organisms.; GO: 0006457 protein folding; PDB: 1IX5_A 3JXV_A 3JYM_A 1T11_A 1PBK_A 1FD9_A 2VCD_A 3B7X_A 1Q6H_B 1Q6I_B ....
Probab=99.87 E-value=1.3e-21 Score=143.69 Aligned_cols=92 Identities=49% Similarity=0.929 Sum_probs=85.3
Q ss_pred CCCCCCCEEEEEEEEEEcCCcEEeccCCCCCceEEEcccccchhhHHHhhcCCCCCCCccCCcEEEEEECCCCCCCCCCC
Q 027679 116 PEAVKGQLIKAHYVGKLENGKVFDSSYNRGKPLIFRLGVGEVIKGWDEGILGGDGIPPMLTGGKRILKIPPELAYGMRGA 195 (220)
Q Consensus 116 ~~~~~gd~V~v~Y~~~~~~G~vfdst~~~~~p~~f~lG~~~~i~Gl~~aL~g~~~l~~Mk~Ge~~~v~IP~~layG~~g~ 195 (220)
.+|+.||.|.+||++++.+|++|++++..+.|+.|.+|.+.+++||+++|.+ |++||+++|+||++++||+.+.
T Consensus 3 ~~~~~gd~V~i~y~~~~~~g~~~~~~~~~~~~~~~~~g~~~~i~g~e~al~~------m~~Ge~~~~~vp~~~ayg~~~~ 76 (94)
T PF00254_consen 3 RTPKEGDTVTIHYTGRLEDGKVFDSSYQEGEPFEFRLGSGQVIPGLEEALIG------MKVGEKREFYVPPELAYGEKGL 76 (94)
T ss_dssp SSBSTTSEEEEEEEEEETTSEEEEETTTTTSEEEEETTSSSSSHHHHHHHTT------SBTTEEEEEEEEGGGTTTTTTB
T ss_pred ccCCCCCEEEEEEEEEECCCcEEEEeeecCcceeeeeccCccccchhhhccc------ccCCCEeeeEeCChhhcCcccc
Confidence 3589999999999999999999999988889999999999999999999988 9999999999999999999887
Q ss_pred CCCCCCCCCCCCCeEEEEEEEe
Q 027679 196 GCRGGSCIIPPDSVLMFDVEFV 217 (220)
Q Consensus 196 ~~~~~~~~Ip~~s~Lvf~VeLv 217 (220)
.. ..||++++|+|+|+|+
T Consensus 77 ~~----~~ip~~~~l~f~Iell 94 (94)
T PF00254_consen 77 EP----PKIPPNSTLVFEIELL 94 (94)
T ss_dssp CT----TTBTTTSEEEEEEEEE
T ss_pred CC----CCcCCCCeEEEEEEEC
Confidence 42 2599999999999996
No 9
>PRK15095 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional
Probab=99.68 E-value=1.8e-16 Score=127.56 Aligned_cols=72 Identities=32% Similarity=0.661 Sum_probs=68.1
Q ss_pred CCCCCCEEEEEEEEEEcCCcEEeccCCCCCceEEEcccccchhhHHHhhcCCCCCCCccCCcEEEEEECCCCCCCCCC
Q 027679 117 EAVKGQLIKAHYVGKLENGKVFDSSYNRGKPLIFRLGVGEVIKGWDEGILGGDGIPPMLTGGKRILKIPPELAYGMRG 194 (220)
Q Consensus 117 ~~~~gd~V~v~Y~~~~~~G~vfdst~~~~~p~~f~lG~~~~i~Gl~~aL~g~~~l~~Mk~Ge~~~v~IP~~layG~~g 194 (220)
+++.|+.|.+||++++.||++||+|+..+.|+.|.+|.+++++||+++|.| |++|++++|.|||++|||.+.
T Consensus 4 ~i~~~~~V~v~Y~~~~~dG~v~dst~~~~~P~~f~~G~g~vi~gle~aL~g------m~~Ge~~~v~ipp~~ayG~~d 75 (156)
T PRK15095 4 SVQSNSAVLVHFTLKLDDGSTAESTRNNGKPALFRLGDGSLSEGLEQQLLG------LKVGDKKTFSLEPEAAFGVPS 75 (156)
T ss_pred ccCCCCEEEEEEEEEeCCCCEEEECCCCCCCEEEEeCCCCccHHHHHHHcC------CCCCCEEEEEEChHHhcCCCC
Confidence 578999999999999999999999997779999999999999999999998 999999999999999999764
No 10
>KOG0543 consensus FKBP-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]
Probab=99.64 E-value=2.4e-15 Score=135.01 Aligned_cols=104 Identities=32% Similarity=0.533 Sum_probs=90.7
Q ss_pred CCCeEEEEEEecCC--CCCCCCCEEEEEEEEEEcCCcEEeccCCCCCceEEEccc-ccchhhHHHhhcCCCCCCCccCCc
Q 027679 102 PSGLAFCDKVVGVG--PEAVKGQLIKAHYVGKLENGKVFDSSYNRGKPLIFRLGV-GEVIKGWDEGILGGDGIPPMLTGG 178 (220)
Q Consensus 102 ~sGl~y~~l~~G~G--~~~~~gd~V~v~Y~~~~~~G~vfdst~~~~~p~~f~lG~-~~~i~Gl~~aL~g~~~l~~Mk~Ge 178 (220)
+.+|..+++++|.| ..|..|..|.|||.+++.++ +|+++. ..+.|..|. ..+|.||+.+|. +|++|+
T Consensus 83 Dg~iiKriir~G~gd~~~P~~g~~V~v~~~G~~~~~-~f~~~~---~~fe~~~Ge~~~vi~Gle~al~------~M~~GE 152 (397)
T KOG0543|consen 83 DGGIIKRIIREGEGDYSRPNKGAVVKVHLEGELEDG-VFDQRE---LRFEFGEGEDIDVIEGLEIALR------MMKVGE 152 (397)
T ss_pred CCceEEeeeecCCCCCCCCCCCcEEEEEEEEEECCc-ceeccc---cceEEecCCccchhHHHHHHHH------hcCccc
Confidence 88999999999999 67999999999999999766 887753 448888887 579999999965 499999
Q ss_pred EEEEEECCCCCCCCCCCCCCCCCCCCCCCCeEEEEEEEeee
Q 027679 179 KRILKIPPELAYGMRGAGCRGGSCIIPPDSVLMFDVEFVGK 219 (220)
Q Consensus 179 ~~~v~IP~~layG~~g~~~~~~~~~Ip~~s~Lvf~VeLv~i 219 (220)
.+.|+|+|+++||+.+.. +|.||||++|.|+|+|++.
T Consensus 153 ~a~v~i~~~YayG~~~~~----~p~IPPnA~l~yEVeL~~f 189 (397)
T KOG0543|consen 153 VALVTIDPKYAYGEEGGE----PPLIPPNATLLYEVELLDF 189 (397)
T ss_pred eEEEEeCcccccCCCCCC----CCCCCCCceEEEEEEEEee
Confidence 999999999999955443 5689999999999999985
No 11
>COG1047 SlpA FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]
Probab=99.61 E-value=5.1e-15 Score=119.94 Aligned_cols=72 Identities=36% Similarity=0.650 Sum_probs=67.9
Q ss_pred CCCCCCEEEEEEEEEEcCCcEEeccCCCCCceEEEcccccchhhHHHhhcCCCCCCCccCCcEEEEEECCCCCCCCCC
Q 027679 117 EAVKGQLIKAHYVGKLENGKVFDSSYNRGKPLIFRLGVGEVIKGWDEGILGGDGIPPMLTGGKRILKIPPELAYGMRG 194 (220)
Q Consensus 117 ~~~~gd~V~v~Y~~~~~~G~vfdst~~~~~p~~f~lG~~~~i~Gl~~aL~g~~~l~~Mk~Ge~~~v~IP~~layG~~g 194 (220)
+++.||.|++||++++.||++||+|.....|+.|.+|.+++++||++||.| |.+|++.+|.|||+.|||.+.
T Consensus 2 ~i~k~~~V~i~Y~~~~~dg~v~Dtt~e~~~P~~~i~G~g~li~glE~al~g------~~~Ge~~~V~IpPE~AfGe~~ 73 (174)
T COG1047 2 KIEKGDVVSLHYTLKVEDGEVVDTTDENYGPLTFIVGAGQLIPGLEEALLG------KEVGEEFTVEIPPEDAFGEYD 73 (174)
T ss_pred cccCCCEEEEEEEEEecCCcEEEcccccCCCeEEEecCCCcchhHHHHHhC------CCCCceeEEEeCchHhcCCCC
Confidence 478899999999999999999999987578999999999999999999999 999999999999999999764
No 12
>PRK10737 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional
Probab=99.53 E-value=4.6e-14 Score=117.13 Aligned_cols=71 Identities=25% Similarity=0.375 Sum_probs=66.6
Q ss_pred CCCCCCEEEEEEEEEEcCCcEEeccCCCCCceEEEcccccchhhHHHhhcCCCCCCCccCCcEEEEEECCCCCCCCCC
Q 027679 117 EAVKGQLIKAHYVGKLENGKVFDSSYNRGKPLIFRLGVGEVIKGWDEGILGGDGIPPMLTGGKRILKIPPELAYGMRG 194 (220)
Q Consensus 117 ~~~~gd~V~v~Y~~~~~~G~vfdst~~~~~p~~f~lG~~~~i~Gl~~aL~g~~~l~~Mk~Ge~~~v~IP~~layG~~g 194 (220)
+++.++.|+++|++++.+|++|++|+. ..|+.|.+|.++++++|+++|.| |++|++++|.|||+.|||.+.
T Consensus 2 kI~~~~vV~l~Y~l~~~dG~v~dst~~-~~Pl~~~~G~g~lipglE~aL~G------~~~Gd~~~v~l~peeAyGe~d 72 (196)
T PRK10737 2 KVAKDLVVSLAYQVRTEDGVLVDESPV-SAPLDYLHGHGSLISGLETALEG------HEVGDKFDVAVGANDAYGQYD 72 (196)
T ss_pred ccCCCCEEEEEEEEEeCCCCEEEecCC-CCCeEEEeCCCcchHHHHHHHcC------CCCCCEEEEEEChHHhcCCCC
Confidence 467899999999999999999999975 58999999999999999999999 999999999999999999764
No 13
>KOG0543 consensus FKBP-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]
Probab=99.06 E-value=2.9e-10 Score=102.47 Aligned_cols=81 Identities=42% Similarity=0.813 Sum_probs=70.9
Q ss_pred ecCC-CCCCCCCEEEEEEEEEEcCCcEEeccCCCCCceEEEcccccchhhHHHhhcCCCCCCCccCCcEEEEEECCCCCC
Q 027679 112 VGVG-PEAVKGQLIKAHYVGKLENGKVFDSSYNRGKPLIFRLGVGEVIKGWDEGILGGDGIPPMLTGGKRILKIPPELAY 190 (220)
Q Consensus 112 ~G~G-~~~~~gd~V~v~Y~~~~~~G~vfdst~~~~~p~~f~lG~~~~i~Gl~~aL~g~~~l~~Mk~Ge~~~v~IP~~lay 190 (220)
+|+| ..|..||.|.+||++++.||+.||+|.+ +.|+.|.+|.+.+|.||..++.- |+.
T Consensus 2 eg~g~~~p~~g~~v~~hytg~l~dgt~fdss~d-~~~~~~~lg~g~vi~~~~~gv~t------m~~-------------- 60 (397)
T KOG0543|consen 2 EGTGTETPMTGDKVEVHYTGTLLDGTKFDSSRD-GDPFKFDLGKGSVIKGWDLGVAT------MKK-------------- 60 (397)
T ss_pred CCCCccCCCCCceeEEEEeEEecCCeecccccC-CCceeeecCCCcccccccccccc------ccc--------------
Confidence 6777 4599999999999999999999999988 79999999999999999999654 877
Q ss_pred CCCCCCCCCCCCCCCCCCeEEEEEEEee
Q 027679 191 GMRGAGCRGGSCIIPPDSVLMFDVEFVG 218 (220)
Q Consensus 191 G~~g~~~~~~~~~Ip~~s~Lvf~VeLv~ 218 (220)
|+.+. ||.||++++|.|+|+|++
T Consensus 61 g~~~~-----pp~ip~~a~l~fe~el~D 83 (397)
T KOG0543|consen 61 GEAGS-----PPKIPSNATLLFEVELLD 83 (397)
T ss_pred cccCC-----CCCCCCCcceeeeecccC
Confidence 55555 348999999999999853
No 14
>TIGR00115 tig trigger factor. Trigger factor is a ribosome-associated molecular chaperone and is the first chaperone to interact with nascent polypeptide. Trigger factor can bind at the same time as the signal recognition particle (SRP), but is excluded by the SRP receptor (FtsY). The central domain of trigger factor has peptidyl-prolyl cis/trans isomerase activity. This protein is found in a single copy in virtually every bacterial genome.
Probab=98.90 E-value=1.1e-08 Score=93.85 Aligned_cols=84 Identities=23% Similarity=0.439 Sum_probs=74.6
Q ss_pred CCCCCCEEEEEEEEEEcCCcEEeccCCCCCceEEEcccccchhhHHHhhcCCCCCCCccCCcEEEEEECCCCCCCCCCCC
Q 027679 117 EAVKGQLIKAHYVGKLENGKVFDSSYNRGKPLIFRLGVGEVIKGWDEGILGGDGIPPMLTGGKRILKIPPELAYGMRGAG 196 (220)
Q Consensus 117 ~~~~gd~V~v~Y~~~~~~G~vfdst~~~~~p~~f~lG~~~~i~Gl~~aL~g~~~l~~Mk~Ge~~~v~IP~~layG~~g~~ 196 (220)
.++.||.|.++|+++. +|+.|+++. ..++.|.+|.+.+++||+++|.| |++|++++|.+|....|+....
T Consensus 146 ~~~~gD~V~v~~~~~~-dg~~~~~~~--~~~~~~~lg~~~~~~~~ee~L~G------~k~Gd~~~~~v~~p~~~~~~~~- 215 (408)
T TIGR00115 146 AAEKGDRVTIDFEGFI-DGEAFEGGK--AENFSLELGSGQFIPGFEEQLVG------MKAGEEKEIKVTFPEDYHAEEL- 215 (408)
T ss_pred ccCCCCEEEEEEEEEE-CCEECcCCC--CCCeEEEECCCCcchhHHHHhCC------CCCCCeeEEEecCccccCcccC-
Confidence 5788999999999986 899998864 47899999999999999999999 9999999999998888876433
Q ss_pred CCCCCCCCCCCCeEEEEEEEeee
Q 027679 197 CRGGSCIIPPDSVLMFDVEFVGK 219 (220)
Q Consensus 197 ~~~~~~~Ip~~s~Lvf~VeLv~i 219 (220)
+|.++.|+|+|.+|
T Consensus 216 ---------~gk~~~f~v~i~~I 229 (408)
T TIGR00115 216 ---------AGKEATFKVTVKEV 229 (408)
T ss_pred ---------CCCeEEEEEEEEEe
Confidence 67899999999987
No 15
>PRK01490 tig trigger factor; Provisional
Probab=98.80 E-value=3.8e-08 Score=90.99 Aligned_cols=84 Identities=21% Similarity=0.451 Sum_probs=73.9
Q ss_pred CCCCCCEEEEEEEEEEcCCcEEeccCCCCCceEEEcccccchhhHHHhhcCCCCCCCccCCcEEEEEECCCCCCCCCCCC
Q 027679 117 EAVKGQLIKAHYVGKLENGKVFDSSYNRGKPLIFRLGVGEVIKGWDEGILGGDGIPPMLTGGKRILKIPPELAYGMRGAG 196 (220)
Q Consensus 117 ~~~~gd~V~v~Y~~~~~~G~vfdst~~~~~p~~f~lG~~~~i~Gl~~aL~g~~~l~~Mk~Ge~~~v~IP~~layG~~g~~ 196 (220)
.++.||.|.++|.++. +|+.|+++. ..++.|.+|.+.+++||+++|.| |++|+++.|.++....|+....
T Consensus 157 ~~~~gD~V~vd~~~~~-~g~~~~~~~--~~~~~~~lg~~~~~~~fee~L~G------~k~Ge~~~~~~~~p~~~~~~~l- 226 (435)
T PRK01490 157 PAENGDRVTIDFVGSI-DGEEFEGGK--AEDFSLELGSGRFIPGFEEQLVG------MKAGEEKTIDVTFPEDYHAEDL- 226 (435)
T ss_pred cCCCCCEEEEEEEEEE-CCEECcCCC--CCceEEEEcCCCcchhHHHHhCC------CCCCCeeEEEecCccccccccC-
Confidence 4789999999999997 899998764 36899999999999999999999 9999999999988888866433
Q ss_pred CCCCCCCCCCCCeEEEEEEEeee
Q 027679 197 CRGGSCIIPPDSVLMFDVEFVGK 219 (220)
Q Consensus 197 ~~~~~~~Ip~~s~Lvf~VeLv~i 219 (220)
+|.+..|.|+|.+|
T Consensus 227 ---------agk~~~f~v~v~~V 240 (435)
T PRK01490 227 ---------AGKEATFKVTVKEV 240 (435)
T ss_pred ---------CCCeEEEEEEEEEe
Confidence 57789999999987
No 16
>COG0544 Tig FKBP-type peptidyl-prolyl cis-trans isomerase (trigger factor) [Posttranslational modification, protein turnover, chaperones]
Probab=98.54 E-value=3.4e-07 Score=84.88 Aligned_cols=83 Identities=20% Similarity=0.428 Sum_probs=70.4
Q ss_pred CCCCCEEEEEEEEEEcCCcEEeccCCCCCceEEEcccccchhhHHHhhcCCCCCCCccCCcEEEEEECCCCCCCCCCCCC
Q 027679 118 AVKGQLIKAHYVGKLENGKVFDSSYNRGKPLIFRLGVGEVIKGWDEGILGGDGIPPMLTGGKRILKIPPELAYGMRGAGC 197 (220)
Q Consensus 118 ~~~gd~V~v~Y~~~~~~G~vfdst~~~~~p~~f~lG~~~~i~Gl~~aL~g~~~l~~Mk~Ge~~~v~IP~~layG~~g~~~ 197 (220)
++.||.|+|+|.++. ||..|...- ...+.|.+|.+.+||||+++|+| |+.|++..|-+.....|.....
T Consensus 158 a~~gD~v~IDf~g~i-Dg~~fegg~--ae~~~l~lGs~~fipgFe~~LvG------~k~Ge~k~i~vtFP~dy~a~~L-- 226 (441)
T COG0544 158 AENGDRVTIDFEGSV-DGEEFEGGK--AENFSLELGSGRFIPGFEDQLVG------MKAGEEKDIKVTFPEDYHAEEL-- 226 (441)
T ss_pred cccCCEEEEEEEEEE-cCeeccCcc--ccCeEEEEcCCCchhhHHhhhcc------CcCCCeeEEEEEcccccchhHh--
Confidence 889999999999975 999998753 36799999999999999999999 9999999977766666665443
Q ss_pred CCCCCCCCCCCeEEEEEEEeee
Q 027679 198 RGGSCIIPPDSVLMFDVEFVGK 219 (220)
Q Consensus 198 ~~~~~~Ip~~s~Lvf~VeLv~i 219 (220)
+|....|.|+|..|
T Consensus 227 --------aGK~a~F~V~vkeV 240 (441)
T COG0544 227 --------AGKEATFKVKVKEV 240 (441)
T ss_pred --------CCCceEEEEEEEEE
Confidence 56678999999887
No 17
>KOG0545 consensus Aryl-hydrocarbon receptor-interacting protein [Posttranslational modification, protein turnover, chaperones]
Probab=97.62 E-value=1.8e-05 Score=67.99 Aligned_cols=80 Identities=18% Similarity=0.138 Sum_probs=69.2
Q ss_pred CCCCeEEEEEEecCCCCCC--CCCEEEEEEEEEEc--CCcEEeccCCCCCceEEEcccccchhhHHHhhcCCCCCCCccC
Q 027679 101 APSGLAFCDKVVGVGPEAV--KGQLIKAHYVGKLE--NGKVFDSSYNRGKPLIFRLGVGEVIKGWDEGILGGDGIPPMLT 176 (220)
Q Consensus 101 ~~sGl~y~~l~~G~G~~~~--~gd~V~v~Y~~~~~--~G~vfdst~~~~~p~~f~lG~~~~i~Gl~~aL~g~~~l~~Mk~ 176 (220)
.-.|++.+++..|+|+-|. +|..|.+||..... .++++|+|...++|.++.+|..--++-|+..|. .|++
T Consensus 8 ~~~gv~Kril~~G~g~l~e~~dGTrv~FHfrtl~~~e~~tviDDsRk~gkPmeiiiGkkFkL~VwE~il~------tM~v 81 (329)
T KOG0545|consen 8 NVEGVKKRILHGGTGELPEFIDGTRVIFHFRTLKCDEERTVIDDSRKVGKPMEIIIGKKFKLEVWEIILT------TMRV 81 (329)
T ss_pred cchhhhHhhccCCCccCccccCCceEEEEEEecccCcccccccchhhcCCCeEEeeccccccHHHHHHHH------HHhh
Confidence 3468999999999997765 89999999999876 467999999999999999999888999999965 4999
Q ss_pred CcEEEEEECC
Q 027679 177 GGKRILKIPP 186 (220)
Q Consensus 177 Ge~~~v~IP~ 186 (220)
++...|++..
T Consensus 82 ~EvaqF~~d~ 91 (329)
T KOG0545|consen 82 HEVAQFWCDT 91 (329)
T ss_pred hhHHHhhhhh
Confidence 9998887753
No 18
>KOG0549 consensus FKBP-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]
Probab=96.70 E-value=0.00072 Score=55.40 Aligned_cols=41 Identities=49% Similarity=0.853 Sum_probs=36.2
Q ss_pred EEcccccchhhHHHhhcCCCCCCCccCCcEEEEEECCCCCCCCCCCC
Q 027679 150 FRLGVGEVIKGWDEGILGGDGIPPMLTGGKRILKIPPELAYGMRGAG 196 (220)
Q Consensus 150 f~lG~~~~i~Gl~~aL~g~~~l~~Mk~Ge~~~v~IP~~layG~~g~~ 196 (220)
|.+|.+.+|+|.++++.| |+.|+++++.|||+++||..+..
T Consensus 1 ~~~g~~~vi~gm~~~~~g------~c~ge~rkvv~pp~l~fg~~~~~ 41 (188)
T KOG0549|consen 1 FTLGQGFVIPGMDQALEG------MCNGEKRKVVIPPHLGFGEGGRG 41 (188)
T ss_pred CcccceEEecCHHHHhhh------hhccccceeccCCcccccccccc
Confidence 356788999999999999 99999999999999999965543
No 19
>PHA02122 hypothetical protein
Probab=50.79 E-value=28 Score=23.21 Aligned_cols=21 Identities=19% Similarity=0.271 Sum_probs=17.5
Q ss_pred CCCCEEEEEEEEEEcCCcEEec
Q 027679 119 VKGQLIKAHYVGKLENGKVFDS 140 (220)
Q Consensus 119 ~~gd~V~v~Y~~~~~~G~vfds 140 (220)
..||.|.++|.... ||+.|-.
T Consensus 39 ~~gd~v~vn~e~~~-ng~l~i~ 59 (65)
T PHA02122 39 DDGDEVIVNFELVV-NGKLIIN 59 (65)
T ss_pred cCCCEEEEEEEEEE-CCEEEEe
Confidence 46899999999987 8888754
No 20
>PF01272 GreA_GreB: Transcription elongation factor, GreA/GreB, C-term; InterPro: IPR001437 Bacterial proteins greA and greB are necessary for efficient RNA polymerase transcription elongation past template-encoded arresting sites. Arresting sites in DNA have the property of trapping a certain fraction of elongating RNA polymerases that pass through, resulting in locked DNA/RNA/ polymerase ternary complexes. Cleavage of the nascent transcript by cleavage factors, such as greA or greB, allows the resumption of elongation from the new 3' terminus [, ]. Escherichia coli GreA and GreB are sequence homologues and have homologues in every known bacterial genome []. GreA induces cleavage two or three nucleotides behind the terminus and can only prevent the formation of arrested complexes while greB releases longer sequences up to eighteen nucleotides in length and can rescue preexisting arrested complexes. These functional differences correlate with a distinctive structural feature, the distribution of positively charged residues on one face of the N-terminal coiled coil. Remarkably, despite close functional similarity, the prokaryotic Gre factors have no sequence or structural similarity with eukaryotic TFIIS. ; GO: 0003677 DNA binding, 0032784 regulation of transcription elongation, DNA-dependent; PDB: 2P4V_E 2ETN_B 3BMB_B 2PN0_D 1GRJ_A 2EUL_C 3AOH_Y 3AOI_X 2F23_A.
Probab=45.59 E-value=29 Score=24.03 Aligned_cols=24 Identities=17% Similarity=0.332 Sum_probs=18.3
Q ss_pred chhhHHHhhcCCCCCCCccCCcEEEEEECC
Q 027679 157 VIKGWDEGILGGDGIPPMLTGGKRILKIPP 186 (220)
Q Consensus 157 ~i~Gl~~aL~g~~~l~~Mk~Ge~~~v~IP~ 186 (220)
...-+-.||+| .++||.+.+.+|.
T Consensus 42 ~~SPLG~ALlG------~~~Gd~v~~~~~~ 65 (77)
T PF01272_consen 42 IDSPLGKALLG------KKVGDEVEVELPG 65 (77)
T ss_dssp TTSHHHHHHTT-------BTT-EEEEEETT
T ss_pred ecCHHHHHhcC------CCCCCEEEEEeCC
Confidence 44568899999 9999999997765
No 21
>PLN00042 photosystem II oxygen-evolving enhancer protein 2; Provisional
Probab=42.20 E-value=36 Score=29.64 Aligned_cols=30 Identities=23% Similarity=0.268 Sum_probs=17.3
Q ss_pred ccCcccccCCCCCCCCCCCCChhhhHHHHhhhhhh
Q 027679 39 SSQQQNSCPPQKLHHLNENPTPFRRREAIGFGLCF 73 (220)
Q Consensus 39 ~~~~~~sC~~~~~~~~~~~~~~~~Rr~~i~l~l~~ 73 (220)
+...++.|..+.+.. ....||.++.+.+.+
T Consensus 33 ~~~~~~~~~~~~~~~-----~~~srr~~l~~~~ga 62 (260)
T PLN00042 33 SRPSQVVCRAQEEDN-----SAVSRRAALALLAGA 62 (260)
T ss_pred CCCcceeeecccccc-----ccccHHHHHHHHHHH
Confidence 334667888766321 236777775555444
No 22
>PF01346 FKBP_N: Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; InterPro: IPR000774 Peptidyl-prolyl cis-trans isomerase (PPIase) catalyses the cis-trans isomerisation of proline imidic peptide bonds in oligopeptides [, ]. This alpha helical domain is found at the N terminus of proteins belonging to the FKBP-type peptidyl-prolyl cis-trans isomerase(IPR001179 from INTERPRO) family. Peptidyl-prolyl cis-trans isomerase has been shown to accelerate the refolding of several proteins in vitro [, , ]; the FKPB-type enzymes probably act in the folding of extracytoplasmic proteins.; GO: 0006457 protein folding; PDB: 1FD9_A 2VCD_A 3OE2_A 2UZ5_A 3B09_A 1Q6H_B 1Q6I_B 1Q6U_A.
Probab=31.49 E-value=43 Score=25.06 Aligned_cols=16 Identities=19% Similarity=0.204 Sum_probs=11.6
Q ss_pred CCCCeEECCCCeEEEE
Q 027679 94 SPCELTVAPSGLAFCD 109 (220)
Q Consensus 94 ~~~~~~~~~sGl~y~~ 109 (220)
....+++++|||+|++
T Consensus 109 k~~GV~~t~SGLqY~V 124 (124)
T PF01346_consen 109 KKEGVKTTESGLQYKV 124 (124)
T ss_dssp TSTTEEE-TTS-EEEE
T ss_pred CCCCCEECCCCCeeeC
Confidence 3567999999999986
No 23
>TIGR01461 greB transcription elongation factor GreB. The GreA and GreB transcription elongation factors enable to continuation of RNA transcription past template-encoded arresting sites. Among the Proteobacteria, distinct clades of GreA and GreB are found. GreB differs functionally in that it releases larger oligonucleotides. This model describes proteobacterial GreB.
Probab=30.93 E-value=96 Score=24.71 Aligned_cols=24 Identities=13% Similarity=0.253 Sum_probs=20.0
Q ss_pred chhhHHHhhcCCCCCCCccCCcEEEEEECC
Q 027679 157 VIKGWDEGILGGDGIPPMLTGGKRILKIPP 186 (220)
Q Consensus 157 ~i~Gl~~aL~g~~~l~~Mk~Ge~~~v~IP~ 186 (220)
+..-+..+|+| .++||.+.+.+|.
T Consensus 119 ~~SPlG~ALlG------k~~GD~v~v~~p~ 142 (156)
T TIGR01461 119 IDSPLARALLK------KEVGDEVVVNTPA 142 (156)
T ss_pred CCCHHHHHHcC------CCCCCEEEEEcCC
Confidence 45668899999 9999999997665
No 24
>PRK00226 greA transcription elongation factor GreA; Reviewed
Probab=30.42 E-value=58 Score=25.78 Aligned_cols=25 Identities=12% Similarity=0.215 Sum_probs=20.4
Q ss_pred cchhhHHHhhcCCCCCCCccCCcEEEEEECC
Q 027679 156 EVIKGWDEGILGGDGIPPMLTGGKRILKIPP 186 (220)
Q Consensus 156 ~~i~Gl~~aL~g~~~l~~Mk~Ge~~~v~IP~ 186 (220)
.+..-+-.+|+| .++||.+.+.+|.
T Consensus 121 S~~SPlG~aLlG------k~~Gd~v~~~~p~ 145 (157)
T PRK00226 121 SIESPIARALIG------KKVGDTVEVTTPG 145 (157)
T ss_pred ccCChHHHHHhC------CCCCCEEEEEcCC
Confidence 345668899999 9999999997765
No 25
>PF12690 BsuPI: Intracellular proteinase inhibitor; InterPro: IPR020481 BsuPI is a intracellular proteinase inhibitor that directly regulates the major intracellular proteinase (ISP-1) activity in vivo. It inhibits ISP-1 in the early stages of sporulation and then may be inactivated by a membrane-bound proteinase [].; PDB: 3ISY_A.
Probab=27.72 E-value=2.1e+02 Score=20.17 Aligned_cols=13 Identities=8% Similarity=-0.079 Sum_probs=7.3
Q ss_pred ccCCcEEEEEECC
Q 027679 174 MLTGGKRILKIPP 186 (220)
Q Consensus 174 Mk~Ge~~~v~IP~ 186 (220)
+.+|+...+....
T Consensus 56 l~pGe~~~~~~~~ 68 (82)
T PF12690_consen 56 LEPGESLTYEETW 68 (82)
T ss_dssp E-TT-EEEEEEEE
T ss_pred ECCCCEEEEEEEE
Confidence 6778877766544
No 26
>TIGR01462 greA transcription elongation factor GreA. In the Chlamydias and some spirochetes, the region described by this model is found as the C-terminal region of a much larger protein.
Probab=25.96 E-value=1.9e+02 Score=22.73 Aligned_cols=25 Identities=12% Similarity=0.239 Sum_probs=20.7
Q ss_pred cchhhHHHhhcCCCCCCCccCCcEEEEEECC
Q 027679 156 EVIKGWDEGILGGDGIPPMLTGGKRILKIPP 186 (220)
Q Consensus 156 ~~i~Gl~~aL~g~~~l~~Mk~Ge~~~v~IP~ 186 (220)
.+..-+-.+|+| .++||.+.+.+|.
T Consensus 116 S~~SPlG~ALlG------~~~Gd~v~v~~p~ 140 (151)
T TIGR01462 116 SIDSPLGKALIG------KKVGDVVEVQTPK 140 (151)
T ss_pred cCCCHHHHHHcC------CCCCCEEEEEeCC
Confidence 455678899999 9999999997765
No 27
>PRK05753 nucleoside diphosphate kinase regulator; Provisional
Probab=24.35 E-value=1.5e+02 Score=22.96 Aligned_cols=25 Identities=20% Similarity=0.315 Sum_probs=20.3
Q ss_pred cchhhHHHhhcCCCCCCCccCCcEEEEEECC
Q 027679 156 EVIKGWDEGILGGDGIPPMLTGGKRILKIPP 186 (220)
Q Consensus 156 ~~i~Gl~~aL~g~~~l~~Mk~Ge~~~v~IP~ 186 (220)
.+..-+..||+| .++||.+.+..|.
T Consensus 90 Si~SPlG~ALlG------~~~Gd~v~v~~p~ 114 (137)
T PRK05753 90 SVLAPVGAALLG------LSVGQSIDWPLPG 114 (137)
T ss_pred cccCHHHHHHcC------CCCCCEEEEECCC
Confidence 345678899999 9999999986654
No 28
>PRK05892 nucleoside diphosphate kinase regulator; Provisional
Probab=22.43 E-value=1.9e+02 Score=23.02 Aligned_cols=24 Identities=13% Similarity=0.188 Sum_probs=19.8
Q ss_pred chhhHHHhhcCCCCCCCccCCcEEEEEECC
Q 027679 157 VIKGWDEGILGGDGIPPMLTGGKRILKIPP 186 (220)
Q Consensus 157 ~i~Gl~~aL~g~~~l~~Mk~Ge~~~v~IP~ 186 (220)
+..-+-.||+| .++||.+.+..|.
T Consensus 121 ~~SPlG~ALlG------k~vGD~v~v~~p~ 144 (158)
T PRK05892 121 ADSPLGQALAG------HQAGDTVTYSTPQ 144 (158)
T ss_pred cCCHHHHHHhC------CCCCCEEEEEcCC
Confidence 44568899999 8999999987665
No 29
>PRK01885 greB transcription elongation factor GreB; Reviewed
Probab=21.57 E-value=1.5e+02 Score=23.56 Aligned_cols=23 Identities=13% Similarity=0.162 Sum_probs=19.5
Q ss_pred hhhHHHhhcCCCCCCCccCCcEEEEEECC
Q 027679 158 IKGWDEGILGGDGIPPMLTGGKRILKIPP 186 (220)
Q Consensus 158 i~Gl~~aL~g~~~l~~Mk~Ge~~~v~IP~ 186 (220)
..-+-.+|+| .++||.+.+.+|.
T Consensus 122 ~SPlG~ALlG------k~vGd~v~v~~p~ 144 (157)
T PRK01885 122 DSPMARALLK------KEVGDEVTVNTPA 144 (157)
T ss_pred cCHHHHHHhC------CCCCCEEEEEcCC
Confidence 4568899999 8999999997765
Done!