Query 011892
Match_columns 475
No_of_seqs 219 out of 1457
Neff 4.7
Searched_HMMs 46136
Date Fri Mar 29 06:22:47 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/011892.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/011892hhsearch_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 99.9 1.2E-26 2.7E-31 221.1 12.9 119 350-474 86-205 (205)
2 KOG0552 FKBP-type peptidyl-pro 99.9 8.3E-24 1.8E-28 205.2 13.8 110 361-474 116-226 (226)
3 PRK11570 peptidyl-prolyl cis-t 99.9 1.1E-23 2.3E-28 202.5 14.1 120 349-474 86-206 (206)
4 KOG0544 FKBP-type peptidyl-pro 99.9 2.3E-23 4.9E-28 177.5 11.5 105 366-474 2-108 (108)
5 TIGR03516 ppisom_GldI peptidyl 99.9 7.4E-23 1.6E-27 192.5 14.4 117 357-475 61-177 (177)
6 KOG0549 FKBP-type peptidyl-pro 99.9 7E-23 1.5E-27 192.4 13.3 111 363-475 66-177 (188)
7 PRK10902 FKBP-type peptidyl-pr 99.9 1.6E-21 3.4E-26 194.3 14.5 119 350-475 131-250 (269)
8 PF00254 FKBP_C: FKBP-type pep 99.8 9.8E-19 2.1E-23 145.7 11.6 91 380-471 3-94 (94)
9 PRK15095 FKBP-type peptidyl-pr 99.5 3.5E-14 7.6E-19 131.3 9.0 73 380-453 3-76 (156)
10 KOG0543 FKBP-type peptidyl-pro 99.5 2.2E-13 4.8E-18 141.4 14.4 107 364-474 83-190 (397)
11 PRK10737 FKBP-type peptidyl-pr 99.4 3E-13 6.5E-18 129.7 9.2 73 380-453 1-73 (196)
12 COG1047 SlpA FKBP-type peptidy 99.4 6E-13 1.3E-17 125.3 9.9 73 380-453 1-74 (174)
13 TIGR00115 tig trigger factor. 98.9 1.5E-08 3.2E-13 105.8 11.4 86 381-475 146-231 (408)
14 PRK01490 tig trigger factor; P 98.8 4.2E-08 9.1E-13 103.3 11.4 86 381-475 157-242 (435)
15 KOG0543 FKBP-type peptidyl-pro 98.6 7.3E-08 1.6E-12 100.8 7.0 78 379-472 6-83 (397)
16 COG0544 Tig FKBP-type peptidyl 98.5 3.9E-07 8.5E-12 97.2 9.5 85 382-475 158-242 (441)
17 KOG0545 Aryl-hydrocarbon recep 97.5 2.3E-05 5E-10 78.5 -0.5 81 364-444 9-91 (329)
18 KOG0549 FKBP-type peptidyl-pro 96.6 0.0013 2.8E-08 63.1 2.7 41 414-454 1-41 (188)
19 PF01346 FKBP_N: Domain amino 66.1 3.9 8.6E-05 35.8 1.9 23 349-371 102-124 (124)
20 PF08729 HUN: HPC2 and ubinucl 39.0 15 0.00033 28.7 1.0 12 36-47 18-29 (55)
21 PF01272 GreA_GreB: Transcript 35.1 47 0.001 27.1 3.4 24 421-444 42-65 (77)
22 TIGR01461 greB transcription e 33.8 1.4E+02 0.0031 27.9 6.8 24 421-444 119-142 (156)
23 PRK00226 greA transcription el 29.8 1.5E+02 0.0032 27.5 6.1 24 421-444 122-145 (157)
24 PF15260 FAM219A: Protein fami 28.5 34 0.00073 31.4 1.6 22 36-57 88-110 (125)
25 KOG1824 TATA-binding protein-i 24.9 35 0.00075 40.8 1.2 23 26-48 322-344 (1233)
26 TIGR01462 greA transcription e 23.1 1.3E+02 0.0029 27.7 4.5 25 420-444 116-140 (151)
27 KOG1832 HIV-1 Vpr-binding prot 23.0 48 0.001 39.6 1.9 9 8-16 1401-1409(1516)
28 KOG3540 Beta amyloid precursor 22.8 53 0.0012 36.5 2.0 30 16-45 194-223 (615)
29 PRK05892 nucleoside diphosphat 22.2 1.8E+02 0.0039 27.4 5.2 24 421-444 121-144 (158)
30 PF04931 DNA_pol_phi: DNA poly 20.7 62 0.0013 37.6 2.2 38 10-47 659-696 (784)
31 KOG2236 Uncharacterized conser 20.2 85 0.0018 34.7 2.9 25 29-53 153-177 (483)
No 1
>COG0545 FkpA FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]
Probab=99.94 E-value=1.2e-26 Score=221.06 Aligned_cols=119 Identities=45% Similarity=0.743 Sum_probs=112.9
Q ss_pred ccccccccCCeeeCCCCeEEEEEeecCCCCCCCCCCCEEEEEEEEEEccCCeEEeccCCC-CCeEEecCCcchhhcHHHH
Q 011892 350 NSSAEGKLSLLRTLPNGLVIQKLGTGKPDGKVAAPGKKISVLYTGKLKENGQVFDSNLGS-TPLKFHLGGKEVIEGLNVG 428 (475)
Q Consensus 350 ~~~~~~k~~~v~ttpSGl~ykILkeGkgtG~~p~~GD~VtVhYtg~l~~DGkVfDST~~~-~P~~f~LG~g~lIpGLEeA 428 (475)
..+.+++...+.++++|++|+++..| .|..|..++.|+|||++.+ .||++||+++.+ .|+.|+|| .+|+||.++
T Consensus 86 f~~~~~k~~~v~~~~sgl~y~~~~~G--~G~~~~~~~~V~vhY~G~l-~~G~vFDsS~~rg~p~~f~l~--~vI~Gw~eg 160 (205)
T COG0545 86 FLEKNAKEKGVKTLPSGLQYKVLKAG--DGAAPKKGDTVTVHYTGTL-IDGTVFDSSYDRGQPAEFPLG--GVIPGWDEG 160 (205)
T ss_pred HHhhhcccCCceECCCCcEEEEEecc--CCCCCCCCCEEEEEEEEec-CCCCccccccccCCCceeecC--CeeehHHHH
Confidence 44577889999999999999999999 7999999999999999999 999999999887 89999999 999999999
Q ss_pred HcCCccCcEEEEEEcCCCCCCCCCCCCCCCCCCCeEEEEEEEEeee
Q 011892 429 LEGMHVGEKRRLLIPPSLGYGSGGDDSKNIPPYSWLEFDVDLVKVH 474 (475)
Q Consensus 429 L~GMkvGEk~~ViIPp~LAYG~~G~~~kgIPPnStLVFdVELL~VK 474 (475)
|.+|++|++|+|+|||.+|||..|.++. ||||++|+|+|+||+|+
T Consensus 161 l~~M~vG~k~~l~IP~~laYG~~g~~g~-Ippns~LvFeVeLl~v~ 205 (205)
T COG0545 161 LQGMKVGGKRKLTIPPELAYGERGVPGV-IPPNSTLVFEVELLDVK 205 (205)
T ss_pred HhhCCCCceEEEEeCchhccCcCCCCCC-CCCCCeEEEEEEEEecC
Confidence 9999999999999999999999997776 99999999999999984
No 2
>KOG0552 consensus FKBP-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]
Probab=99.91 E-value=8.3e-24 Score=205.21 Aligned_cols=110 Identities=58% Similarity=0.990 Sum_probs=105.7
Q ss_pred eeCCCCeEEEEEeecCCCCCCCCCCCEEEEEEEEEEccCCeEEeccCCCCCeE-EecCCcchhhcHHHHHcCCccCcEEE
Q 011892 361 RTLPNGLVIQKLGTGKPDGKVAAPGKKISVLYTGKLKENGQVFDSNLGSTPLK-FHLGGKEVIEGLNVGLEGMHVGEKRR 439 (475)
Q Consensus 361 ~ttpSGl~ykILkeGkgtG~~p~~GD~VtVhYtg~l~~DGkVfDST~~~~P~~-f~LG~g~lIpGLEeAL~GMkvGEk~~ 439 (475)
+++++||+|+.++.| .|..+..|++|.|||.+++..+|.+|++++...|+. |.+|.+.+|+||+.+|.||++|++|+
T Consensus 116 ~tl~~Gl~y~D~~vG--~G~~a~~G~rV~v~Y~Gkl~~~GkvFd~~~~~kp~~~f~lg~g~VIkG~d~gv~GMkvGGkRr 193 (226)
T KOG0552|consen 116 RTLPGGLRYEDLRVG--SGPSAKKGKRVSVRYIGKLKGNGKVFDSNFGGKPFKLFRLGSGEVIKGWDVGVEGMKVGGKRR 193 (226)
T ss_pred eecCCCcEEEEEEec--CCCCCCCCCEEEEEEEEEecCCCeEeecccCCCCccccccCCCCCCchHHHhhhhhccCCeeE
Confidence 789999999999999 699999999999999999944999999999989999 99999999999999999999999999
Q ss_pred EEEcCCCCCCCCCCCCCCCCCCCeEEEEEEEEeee
Q 011892 440 LLIPPSLGYGSGGDDSKNIPPYSWLEFDVDLVKVH 474 (475)
Q Consensus 440 ViIPp~LAYG~~G~~~kgIPPnStLVFdVELL~VK 474 (475)
|+|||+||||..+.+. ||||+||+|+|+|+.|+
T Consensus 194 viIPp~lgYg~~g~~~--IppnstL~fdVEL~~v~ 226 (226)
T KOG0552|consen 194 VIIPPELGYGKKGVPE--IPPNSTLVFDVELLSVK 226 (226)
T ss_pred EEeCccccccccCcCc--CCCCCcEEEEEEEEecC
Confidence 9999999999999986 99999999999999985
No 3
>PRK11570 peptidyl-prolyl cis-trans isomerase; Provisional
Probab=99.91 E-value=1.1e-23 Score=202.47 Aligned_cols=120 Identities=36% Similarity=0.595 Sum_probs=111.7
Q ss_pred cccccccccCCeeeCCCCeEEEEEeecCCCCCCCCCCCEEEEEEEEEEccCCeEEeccCCC-CCeEEecCCcchhhcHHH
Q 011892 349 ENSSAEGKLSLLRTLPNGLVIQKLGTGKPDGKVAAPGKKISVLYTGKLKENGQVFDSNLGS-TPLKFHLGGKEVIEGLNV 427 (475)
Q Consensus 349 e~~~~~~k~~~v~ttpSGl~ykILkeGkgtG~~p~~GD~VtVhYtg~l~~DGkVfDST~~~-~P~~f~LG~g~lIpGLEe 427 (475)
...++|++.+++.++++|++|+|+++| .|..|..|+.|.|||++++ .+|++|++++.+ .|+.|.+| .+||||++
T Consensus 86 ~fl~~~~k~~gv~~t~sGl~y~vi~~G--~G~~p~~~d~V~v~Y~g~l-~dG~vfdss~~~g~P~~f~l~--~vipG~~e 160 (206)
T PRK11570 86 KFLEENAKKEGVNSTESGLQFRVLTQG--EGAIPARTDRVRVHYTGKL-IDGTVFDSSVARGEPAEFPVN--GVIPGWIE 160 (206)
T ss_pred HHHHHhhhcCCcEECCCCcEEEEEeCC--CCCCCCCCCEEEEEEEEEE-CCCCEEEeccCCCCCeEEEee--chhhHHHH
Confidence 344578899999999999999999999 6899999999999999999 799999999876 79999997 79999999
Q ss_pred HHcCCccCcEEEEEEcCCCCCCCCCCCCCCCCCCCeEEEEEEEEeee
Q 011892 428 GLEGMHVGEKRRLLIPPSLGYGSGGDDSKNIPPYSWLEFDVDLVKVH 474 (475)
Q Consensus 428 AL~GMkvGEk~~ViIPp~LAYG~~G~~~kgIPPnStLVFdVELL~VK 474 (475)
+|.+|++|+++.|+|||.+|||..|.++. |||+++|+|+|+|++|.
T Consensus 161 aL~~M~~G~k~~~~IP~~lAYG~~g~~~~-Ipp~s~Lif~veLl~i~ 206 (206)
T PRK11570 161 ALTLMPVGSKWELTIPHELAYGERGAGAS-IPPFSTLVFEVELLEIL 206 (206)
T ss_pred HHcCCCCCCEEEEEECHHHcCCCCCCCCC-cCCCCeEEEEEEEEEEC
Confidence 99999999999999999999999998755 99999999999999984
No 4
>KOG0544 consensus FKBP-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]
Probab=99.90 E-value=2.3e-23 Score=177.46 Aligned_cols=105 Identities=43% Similarity=0.777 Sum_probs=100.0
Q ss_pred CeEEEEEeecCCCC-CCCCCCCEEEEEEEEEEccCCeEEeccCCC-CCeEEecCCcchhhcHHHHHcCCccCcEEEEEEc
Q 011892 366 GLVIQKLGTGKPDG-KVAAPGKKISVLYTGKLKENGQVFDSNLGS-TPLKFHLGGKEVIEGLNVGLEGMHVGEKRRLLIP 443 (475)
Q Consensus 366 Gl~ykILkeGkgtG-~~p~~GD~VtVhYtg~l~~DGkVfDST~~~-~P~~f~LG~g~lIpGLEeAL~GMkvGEk~~ViIP 443 (475)
|+..++|..| +| ..|+.|+.|++||++.+ .||+.|+|+..+ .||.|.||.+.+|.||++++..|.+|+++++.|+
T Consensus 2 Gv~~~~i~~G--dg~tfpK~Gqtvt~hYtg~L-~dG~kfDSs~dr~kPfkf~IGkgeVIkGwdegv~qmsvGekakLti~ 78 (108)
T KOG0544|consen 2 GVEKQVISPG--DGRTFPKKGQTVTVHYTGTL-QDGKKFDSSRDRGKPFKFKIGKGEVIKGWDEGVAQMSVGEKAKLTIS 78 (108)
T ss_pred CceeEEeeCC--CCcccCCCCCEEEEEEEeEe-cCCcEeecccccCCCeeEEecCcceeechhhcchhccccccceeeec
Confidence 7889999999 56 78999999999999999 999999999887 8999999999999999999999999999999999
Q ss_pred CCCCCCCCCCCCCCCCCCCeEEEEEEEEeee
Q 011892 444 PSLGYGSGGDDSKNIPPYSWLEFDVDLVKVH 474 (475)
Q Consensus 444 p~LAYG~~G~~~kgIPPnStLVFdVELL~VK 474 (475)
|.+|||..|.++. ||||++|+|+||||+|.
T Consensus 79 pd~aYG~~G~p~~-IppNatL~FdVEll~v~ 108 (108)
T KOG0544|consen 79 PDYAYGPRGHPGG-IPPNATLVFDVELLKVN 108 (108)
T ss_pred cccccCCCCCCCc-cCCCcEEEEEEEEEecC
Confidence 9999999998877 99999999999999874
No 5
>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=99.89 E-value=7.4e-23 Score=192.52 Aligned_cols=117 Identities=24% Similarity=0.344 Sum_probs=108.4
Q ss_pred cCCeeeCCCCeEEEEEeecCCCCCCCCCCCEEEEEEEEEEccCCeEEeccCCCCCeEEecCCcchhhcHHHHHcCCccCc
Q 011892 357 LSLLRTLPNGLVIQKLGTGKPDGKVAAPGKKISVLYTGKLKENGQVFDSNLGSTPLKFHLGGKEVIEGLNVGLEGMHVGE 436 (475)
Q Consensus 357 ~~~v~ttpSGl~ykILkeGkgtG~~p~~GD~VtVhYtg~l~~DGkVfDST~~~~P~~f~LG~g~lIpGLEeAL~GMkvGE 436 (475)
...+.++++|++|.++..+.++|..|..||.|+|||++++ .+|++|++++...|+.|.+|.+.+++||+++|.+|++|+
T Consensus 61 ~~~~~~t~sGl~Y~v~~~~~g~g~~p~~gd~V~v~Y~~~~-~dG~v~~ss~~~~P~~f~vg~~~vi~Gl~e~L~~Mk~Ge 139 (177)
T TIGR03516 61 IVKYETSQNGFWYYYNQKDTGEGTTPEFGDLVTFEYDIRA-LDGDVIYSEEELGPQTYKVDQQDLFSGLRDGLKLMKEGE 139 (177)
T ss_pred CCCceECCCccEEEEEEecCCCCCcCCCCCEEEEEEEEEe-CCCCEEEeCCCCCCEEEEeCCcchhHHHHHHHcCCCCCC
Confidence 3566889999999999875557899999999999999999 899999999877899999999999999999999999999
Q ss_pred EEEEEEcCCCCCCCCCCCCCCCCCCCeEEEEEEEEeeeC
Q 011892 437 KRRLLIPPSLGYGSGGDDSKNIPPYSWLEFDVDLVKVHR 475 (475)
Q Consensus 437 k~~ViIPp~LAYG~~G~~~kgIPPnStLVFdVELL~VKk 475 (475)
+++|+|||.+|||..|.++. ||||++|+|+|+|++|++
T Consensus 140 ~~~~~iP~~~AYG~~g~~~~-Ippns~L~f~IeL~~i~~ 177 (177)
T TIGR03516 140 TATFLFPSHKAYGYYGDQNK-IGPNLPIISTVTLLNIKP 177 (177)
T ss_pred EEEEEECHHHcCCCCCCCCC-cCcCCcEEEEEEEEEecC
Confidence 99999999999999998766 999999999999999974
No 6
>KOG0549 consensus FKBP-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]
Probab=99.89 E-value=7e-23 Score=192.37 Aligned_cols=111 Identities=45% Similarity=0.731 Sum_probs=102.3
Q ss_pred CCCCeEEEEEeecCCCCCCCCCCCEEEEEEEEEEccCCeEEeccCCC-CCeEEecCCcchhhcHHHHHcCCccCcEEEEE
Q 011892 363 LPNGLVIQKLGTGKPDGKVAAPGKKISVLYTGKLKENGQVFDSNLGS-TPLKFHLGGKEVIEGLNVGLEGMHVGEKRRLL 441 (475)
Q Consensus 363 tpSGl~ykILkeGkgtG~~p~~GD~VtVhYtg~l~~DGkVfDST~~~-~P~~f~LG~g~lIpGLEeAL~GMkvGEk~~Vi 441 (475)
...++.+.++.+-..+..++..||.|.+||++.+ .||++|||||.+ .|+.|.||.+++|+||+.+|.+||+|++|.++
T Consensus 66 ~~~~l~I~v~~~p~~C~~kak~GD~l~~HY~g~l-eDGt~fdSS~~rg~P~~f~LG~gqVIkG~Dqgl~gMCvGEkRkl~ 144 (188)
T KOG0549|consen 66 PDEELQIGVLKKPEECPEKAKKGDTLHVHYTGSL-EDGTKFDSSYSRGAPFTFTLGTGQVIKGWDQGLLGMCVGEKRKLI 144 (188)
T ss_pred CCCceeEEEEECCccccccccCCCEEEEEEEEEe-cCCCEEeeeccCCCCEEEEeCCCceeccHhHHhhhhCcccceEEe
Confidence 3456788888774447889999999999999998 999999999998 69999999999999999999999999999999
Q ss_pred EcCCCCCCCCCCCCCCCCCCCeEEEEEEEEeeeC
Q 011892 442 IPPSLGYGSGGDDSKNIPPYSWLEFDVDLVKVHR 475 (475)
Q Consensus 442 IPp~LAYG~~G~~~kgIPPnStLVFdVELL~VKk 475 (475)
|||+||||..|.++. ||++++|+|+|||+++.+
T Consensus 145 IPp~LgYG~~G~~~~-IP~~A~LiFdiELv~i~~ 177 (188)
T KOG0549|consen 145 IPPHLGYGERGAPPK-IPGDAVLIFDIELVKIER 177 (188)
T ss_pred cCccccCccCCCCCC-CCCCeeEEEEEEEEEeec
Confidence 999999999999888 999999999999999864
No 7
>PRK10902 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional
Probab=99.87 E-value=1.6e-21 Score=194.35 Aligned_cols=119 Identities=34% Similarity=0.567 Sum_probs=110.5
Q ss_pred ccccccccCCeeeCCCCeEEEEEeecCCCCCCCCCCCEEEEEEEEEEccCCeEEeccCCC-CCeEEecCCcchhhcHHHH
Q 011892 350 NSSAEGKLSLLRTLPNGLVIQKLGTGKPDGKVAAPGKKISVLYTGKLKENGQVFDSNLGS-TPLKFHLGGKEVIEGLNVG 428 (475)
Q Consensus 350 ~~~~~~k~~~v~ttpSGl~ykILkeGkgtG~~p~~GD~VtVhYtg~l~~DGkVfDST~~~-~P~~f~LG~g~lIpGLEeA 428 (475)
..+++++..++.++++|++|+|+.+| .|..|..||.|.|||++++ .+|++|++++.+ .|+.|.++ .+||||+++
T Consensus 131 fl~~~~k~~gv~~t~sGl~y~Vi~~G--~G~~p~~gD~V~V~Y~g~l-~dG~vfdss~~~g~p~~f~l~--~vipG~~Ea 205 (269)
T PRK10902 131 YREKFAKEKGVKTTSTGLLYKVEKEG--TGEAPKDSDTVVVNYKGTL-IDGKEFDNSYTRGEPLSFRLD--GVIPGWTEG 205 (269)
T ss_pred HHHHhccCCCcEECCCccEEEEEeCC--CCCCCCCCCEEEEEEEEEe-CCCCEeeccccCCCceEEecC--CcchHHHHH
Confidence 44588999999999999999999999 6899999999999999998 899999999865 79999886 799999999
Q ss_pred HcCCccCcEEEEEEcCCCCCCCCCCCCCCCCCCCeEEEEEEEEeeeC
Q 011892 429 LEGMHVGEKRRLLIPPSLGYGSGGDDSKNIPPYSWLEFDVDLVKVHR 475 (475)
Q Consensus 429 L~GMkvGEk~~ViIPp~LAYG~~G~~~kgIPPnStLVFdVELL~VKk 475 (475)
|.+|++|+++.|+||+.++||..+.++ |||+++|+|+|+|++|++
T Consensus 206 L~~Mk~Gek~~l~IP~~laYG~~g~~g--Ippns~LvfeVeLl~V~~ 250 (269)
T PRK10902 206 LKNIKKGGKIKLVIPPELAYGKAGVPG--IPANSTLVFDVELLDVKP 250 (269)
T ss_pred HhcCCCCcEEEEEECchhhCCCCCCCC--CCCCCcEEEEEEEEEecc
Confidence 999999999999999999999998764 999999999999999863
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=99.79 E-value=9.8e-19 Score=145.65 Aligned_cols=91 Identities=44% Similarity=0.864 Sum_probs=84.8
Q ss_pred CCCCCCCEEEEEEEEEEccCCeEEeccCCC-CCeEEecCCcchhhcHHHHHcCCccCcEEEEEEcCCCCCCCCCCCCCCC
Q 011892 380 KVAAPGKKISVLYTGKLKENGQVFDSNLGS-TPLKFHLGGKEVIEGLNVGLEGMHVGEKRRLLIPPSLGYGSGGDDSKNI 458 (475)
Q Consensus 380 ~~p~~GD~VtVhYtg~l~~DGkVfDST~~~-~P~~f~LG~g~lIpGLEeAL~GMkvGEk~~ViIPp~LAYG~~G~~~kgI 458 (475)
..|+.||.|+|||++++ .+|++|++++.. .|+.|.+|.+.+++||++||.+|++|+++.|+|||.++||..+..+..|
T Consensus 3 ~~~~~gd~V~i~y~~~~-~~g~~~~~~~~~~~~~~~~~g~~~~i~g~e~al~~m~~Ge~~~~~vp~~~ayg~~~~~~~~i 81 (94)
T PF00254_consen 3 RTPKEGDTVTIHYTGRL-EDGKVFDSSYQEGEPFEFRLGSGQVIPGLEEALIGMKVGEKREFYVPPELAYGEKGLEPPKI 81 (94)
T ss_dssp SSBSTTSEEEEEEEEEE-TTSEEEEETTTTTSEEEEETTSSSSSHHHHHHHTTSBTTEEEEEEEEGGGTTTTTTBCTTTB
T ss_pred ccCCCCCEEEEEEEEEE-CCCcEEEEeeecCcceeeeeccCccccchhhhcccccCCCEeeeEeCChhhcCccccCCCCc
Confidence 56999999999999999 699999999654 8999999999999999999999999999999999999999999855459
Q ss_pred CCCCeEEEEEEEE
Q 011892 459 PPYSWLEFDVDLV 471 (475)
Q Consensus 459 PPnStLVFdVELL 471 (475)
||+++|+|+|+||
T Consensus 82 p~~~~l~f~Iell 94 (94)
T PF00254_consen 82 PPNSTLVFEIELL 94 (94)
T ss_dssp TTTSEEEEEEEEE
T ss_pred CCCCeEEEEEEEC
Confidence 9999999999997
No 9
>PRK15095 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional
Probab=99.52 E-value=3.5e-14 Score=131.34 Aligned_cols=73 Identities=27% Similarity=0.501 Sum_probs=68.5
Q ss_pred CCCCCCCEEEEEEEEEEccCCeEEeccCCC-CCeEEecCCcchhhcHHHHHcCCccCcEEEEEEcCCCCCCCCCC
Q 011892 380 KVAAPGKKISVLYTGKLKENGQVFDSNLGS-TPLKFHLGGKEVIEGLNVGLEGMHVGEKRRLLIPPSLGYGSGGD 453 (475)
Q Consensus 380 ~~p~~GD~VtVhYtg~l~~DGkVfDST~~~-~P~~f~LG~g~lIpGLEeAL~GMkvGEk~~ViIPp~LAYG~~G~ 453 (475)
+.++.|+.|+|||++++ .+|++|++++.. .|+.|.+|.+++++||++||.+|++|+++.|.|||.+|||.+..
T Consensus 3 m~i~~~~~V~v~Y~~~~-~dG~v~dst~~~~~P~~f~~G~g~vi~gle~aL~gm~~Ge~~~v~ipp~~ayG~~d~ 76 (156)
T PRK15095 3 ESVQSNSAVLVHFTLKL-DDGSTAESTRNNGKPALFRLGDGSLSEGLEQQLLGLKVGDKKTFSLEPEAAFGVPSP 76 (156)
T ss_pred cccCCCCEEEEEEEEEe-CCCCEEEECCCCCCCEEEEeCCCCccHHHHHHHcCCCCCCEEEEEEChHHhcCCCCh
Confidence 46889999999999999 899999999864 89999999999999999999999999999999999999998753
No 10
>KOG0543 consensus FKBP-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]
Probab=99.50 E-value=2.2e-13 Score=141.40 Aligned_cols=107 Identities=33% Similarity=0.559 Sum_probs=91.7
Q ss_pred CCCeEEEEEeecCCCCCCCCCCCEEEEEEEEEEccCCeEEeccCCCCCeEEecCC-cchhhcHHHHHcCCccCcEEEEEE
Q 011892 364 PNGLVIQKLGTGKPDGKVAAPGKKISVLYTGKLKENGQVFDSNLGSTPLKFHLGG-KEVIEGLNVGLEGMHVGEKRRLLI 442 (475)
Q Consensus 364 pSGl~ykILkeGkgtG~~p~~GD~VtVhYtg~l~~DGkVfDST~~~~P~~f~LG~-g~lIpGLEeAL~GMkvGEk~~ViI 442 (475)
+.||+.+|+++|.++-..|..|.+|.|||.+++ .++ +|+.... .|.|.+|. ..+|.||+.||..|++|+.+.|+|
T Consensus 83 Dg~iiKriir~G~gd~~~P~~g~~V~v~~~G~~-~~~-~f~~~~~--~fe~~~Ge~~~vi~Gle~al~~M~~GE~a~v~i 158 (397)
T KOG0543|consen 83 DGGIIKRIIREGEGDYSRPNKGAVVKVHLEGEL-EDG-VFDQREL--RFEFGEGEDIDVIEGLEIALRMMKVGEVALVTI 158 (397)
T ss_pred CCceEEeeeecCCCCCCCCCCCcEEEEEEEEEE-CCc-ceecccc--ceEEecCCccchhHHHHHHHHhcCccceEEEEe
Confidence 888999999999532388999999999999999 556 7776533 47888887 579999999999999999999999
Q ss_pred cCCCCCCCCCCCCCCCCCCCeEEEEEEEEeee
Q 011892 443 PPSLGYGSGGDDSKNIPPYSWLEFDVDLVKVH 474 (475)
Q Consensus 443 Pp~LAYG~~G~~~kgIPPnStLVFdVELL~VK 474 (475)
+|.+|||..+..+..|||+++|.|+|+|+++.
T Consensus 159 ~~~YayG~~~~~~p~IPPnA~l~yEVeL~~f~ 190 (397)
T KOG0543|consen 159 DPKYAYGEEGGEPPLIPPNATLLYEVELLDFE 190 (397)
T ss_pred CcccccCCCCCCCCCCCCCceEEEEEEEEeee
Confidence 99999996554444499999999999999985
No 11
>PRK10737 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional
Probab=99.44 E-value=3e-13 Score=129.70 Aligned_cols=73 Identities=29% Similarity=0.445 Sum_probs=69.0
Q ss_pred CCCCCCCEEEEEEEEEEccCCeEEeccCCCCCeEEecCCcchhhcHHHHHcCCccCcEEEEEEcCCCCCCCCCC
Q 011892 380 KVAAPGKKISVLYTGKLKENGQVFDSNLGSTPLKFHLGGKEVIEGLNVGLEGMHVGEKRRLLIPPSLGYGSGGD 453 (475)
Q Consensus 380 ~~p~~GD~VtVhYtg~l~~DGkVfDST~~~~P~~f~LG~g~lIpGLEeAL~GMkvGEk~~ViIPp~LAYG~~G~ 453 (475)
++|..+++|+|+|++++ .+|++|++++...|+.|.+|.++++|||++||.+|.+|+++.|.|||..|||.+..
T Consensus 1 MkI~~~~vV~l~Y~l~~-~dG~v~dst~~~~Pl~~~~G~g~lipglE~aL~G~~~Gd~~~v~l~peeAyGe~d~ 73 (196)
T PRK10737 1 MKVAKDLVVSLAYQVRT-EDGVLVDESPVSAPLDYLHGHGSLISGLETALEGHEVGDKFDVAVGANDAYGQYDE 73 (196)
T ss_pred CccCCCCEEEEEEEEEe-CCCCEEEecCCCCCeEEEeCCCcchHHHHHHHcCCCCCCEEEEEEChHHhcCCCCh
Confidence 46789999999999999 89999999988899999999999999999999999999999999999999998764
No 12
>COG1047 SlpA FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]
Probab=99.42 E-value=6e-13 Score=125.31 Aligned_cols=73 Identities=34% Similarity=0.527 Sum_probs=68.8
Q ss_pred CCCCCCCEEEEEEEEEEccCCeEEeccCC-CCCeEEecCCcchhhcHHHHHcCCccCcEEEEEEcCCCCCCCCCC
Q 011892 380 KVAAPGKKISVLYTGKLKENGQVFDSNLG-STPLKFHLGGKEVIEGLNVGLEGMHVGEKRRLLIPPSLGYGSGGD 453 (475)
Q Consensus 380 ~~p~~GD~VtVhYtg~l~~DGkVfDST~~-~~P~~f~LG~g~lIpGLEeAL~GMkvGEk~~ViIPp~LAYG~~G~ 453 (475)
+.+..|+.|.|+|++++ .||.+|++|.. ..|+.|.+|.+++++||++||.||.+|+++.|.|||..|||.+..
T Consensus 1 m~i~k~~~V~i~Y~~~~-~dg~v~Dtt~e~~~P~~~i~G~g~li~glE~al~g~~~Ge~~~V~IpPE~AfGe~~~ 74 (174)
T COG1047 1 MKIEKGDVVSLHYTLKV-EDGEVVDTTDENYGPLTFIVGAGQLIPGLEEALLGKEVGEEFTVEIPPEDAFGEYDP 74 (174)
T ss_pred CcccCCCEEEEEEEEEe-cCCcEEEcccccCCCeEEEecCCCcchhHHHHHhCCCCCceeEEEeCchHhcCCCCh
Confidence 46889999999999999 78999999987 689999999999999999999999999999999999999998864
No 13
>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=98.85 E-value=1.5e-08 Score=105.83 Aligned_cols=86 Identities=21% Similarity=0.414 Sum_probs=76.5
Q ss_pred CCCCCCEEEEEEEEEEccCCeEEeccCCCCCeEEecCCcchhhcHHHHHcCCccCcEEEEEEcCCCCCCCCCCCCCCCCC
Q 011892 381 VAAPGKKISVLYTGKLKENGQVFDSNLGSTPLKFHLGGKEVIEGLNVGLEGMHVGEKRRLLIPPSLGYGSGGDDSKNIPP 460 (475)
Q Consensus 381 ~p~~GD~VtVhYtg~l~~DGkVfDST~~~~P~~f~LG~g~lIpGLEeAL~GMkvGEk~~ViIPp~LAYG~~G~~~kgIPP 460 (475)
++..||.|+|+|+++. +|..|+++.. .++.|.+|.+.+++||+++|.||++|+++.|.+|+...|+.... +
T Consensus 146 ~~~~gD~V~v~~~~~~--dg~~~~~~~~-~~~~~~lg~~~~~~~~ee~L~G~k~Gd~~~~~v~~p~~~~~~~~------~ 216 (408)
T TIGR00115 146 AAEKGDRVTIDFEGFI--DGEAFEGGKA-ENFSLELGSGQFIPGFEEQLVGMKAGEEKEIKVTFPEDYHAEEL------A 216 (408)
T ss_pred ccCCCCEEEEEEEEEE--CCEECcCCCC-CCeEEEECCCCcchhHHHHhCCCCCCCeeEEEecCccccCcccC------C
Confidence 5889999999999987 8999987643 79999999999999999999999999999999999888987654 4
Q ss_pred CCeEEEEEEEEeeeC
Q 011892 461 YSWLEFDVDLVKVHR 475 (475)
Q Consensus 461 nStLVFdVELL~VKk 475 (475)
|.++.|.|+|.+|++
T Consensus 217 gk~~~f~v~i~~I~~ 231 (408)
T TIGR00115 217 GKEATFKVTVKEVKE 231 (408)
T ss_pred CCeEEEEEEEEEecc
Confidence 559999999999964
No 14
>PRK01490 tig trigger factor; Provisional
Probab=98.77 E-value=4.2e-08 Score=103.34 Aligned_cols=86 Identities=21% Similarity=0.399 Sum_probs=76.0
Q ss_pred CCCCCCEEEEEEEEEEccCCeEEeccCCCCCeEEecCCcchhhcHHHHHcCCccCcEEEEEEcCCCCCCCCCCCCCCCCC
Q 011892 381 VAAPGKKISVLYTGKLKENGQVFDSNLGSTPLKFHLGGKEVIEGLNVGLEGMHVGEKRRLLIPPSLGYGSGGDDSKNIPP 460 (475)
Q Consensus 381 ~p~~GD~VtVhYtg~l~~DGkVfDST~~~~P~~f~LG~g~lIpGLEeAL~GMkvGEk~~ViIPp~LAYG~~G~~~kgIPP 460 (475)
++..||.|+|+|.++. +|..|+.+.. .++.|.+|.+.+++||+++|.||++|+++.|.|++...|+.....
T Consensus 157 ~~~~gD~V~vd~~~~~--~g~~~~~~~~-~~~~~~lg~~~~~~~fee~L~G~k~Ge~~~~~~~~p~~~~~~~la------ 227 (435)
T PRK01490 157 PAENGDRVTIDFVGSI--DGEEFEGGKA-EDFSLELGSGRFIPGFEEQLVGMKAGEEKTIDVTFPEDYHAEDLA------ 227 (435)
T ss_pred cCCCCCEEEEEEEEEE--CCEECcCCCC-CceEEEEcCCCcchhHHHHhCCCCCCCeeEEEecCccccccccCC------
Confidence 5899999999999998 8999887643 689999999999999999999999999999999988888776544
Q ss_pred CCeEEEEEEEEeeeC
Q 011892 461 YSWLEFDVDLVKVHR 475 (475)
Q Consensus 461 nStLVFdVELL~VKk 475 (475)
|.++.|.|+|..|++
T Consensus 228 gk~~~f~v~v~~V~~ 242 (435)
T PRK01490 228 GKEATFKVTVKEVKE 242 (435)
T ss_pred CCeEEEEEEEEEecc
Confidence 458999999999964
No 15
>KOG0543 consensus FKBP-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]
Probab=98.60 E-value=7.3e-08 Score=100.78 Aligned_cols=78 Identities=38% Similarity=0.684 Sum_probs=71.6
Q ss_pred CCCCCCCCEEEEEEEEEEccCCeEEeccCCCCCeEEecCCcchhhcHHHHHcCCccCcEEEEEEcCCCCCCCCCCCCCCC
Q 011892 379 GKVAAPGKKISVLYTGKLKENGQVFDSNLGSTPLKFHLGGKEVIEGLNVGLEGMHVGEKRRLLIPPSLGYGSGGDDSKNI 458 (475)
Q Consensus 379 G~~p~~GD~VtVhYtg~l~~DGkVfDST~~~~P~~f~LG~g~lIpGLEeAL~GMkvGEk~~ViIPp~LAYG~~G~~~kgI 458 (475)
...|..|+.|.+||++++ .||+.|+++....|+.|.+|.+.+|.||..++..|.. |..+.++. |
T Consensus 6 ~~~p~~g~~v~~hytg~l-~dgt~fdss~d~~~~~~~lg~g~vi~~~~~gv~tm~~--------------g~~~~pp~-i 69 (397)
T KOG0543|consen 6 TETPMTGDKVEVHYTGTL-LDGTKFDSSRDGDPFKFDLGKGSVIKGWDLGVATMKK--------------GEAGSPPK-I 69 (397)
T ss_pred ccCCCCCceeEEEEeEEe-cCCeecccccCCCceeeecCCCccccccccccccccc--------------cccCCCCC-C
Confidence 467889999999999999 9999999998878999999999999999999999987 77777787 9
Q ss_pred CCCCeEEEEEEEEe
Q 011892 459 PPYSWLEFDVDLVK 472 (475)
Q Consensus 459 PPnStLVFdVELL~ 472 (475)
|++++|.|.|+|++
T Consensus 70 p~~a~l~fe~el~D 83 (397)
T KOG0543|consen 70 PSNATLLFEVELLD 83 (397)
T ss_pred CCCcceeeeecccC
Confidence 99999999999853
No 16
>COG0544 Tig FKBP-type peptidyl-prolyl cis-trans isomerase (trigger factor) [Posttranslational modification, protein turnover, chaperones]
Probab=98.50 E-value=3.9e-07 Score=97.24 Aligned_cols=85 Identities=22% Similarity=0.445 Sum_probs=75.3
Q ss_pred CCCCCEEEEEEEEEEccCCeEEeccCCCCCeEEecCCcchhhcHHHHHcCCccCcEEEEEEcCCCCCCCCCCCCCCCCCC
Q 011892 382 AAPGKKISVLYTGKLKENGQVFDSNLGSTPLKFHLGGKEVIEGLNVGLEGMHVGEKRRLLIPPSLGYGSGGDDSKNIPPY 461 (475)
Q Consensus 382 p~~GD~VtVhYtg~l~~DGkVfDST~~~~P~~f~LG~g~lIpGLEeAL~GMkvGEk~~ViIPp~LAYG~~G~~~kgIPPn 461 (475)
++.||+|+|.|.++. ||..|..... ..+.|.||.+.|||||+.+|.||+.|+.+.|.|.....|......++
T Consensus 158 a~~gD~v~IDf~g~i--Dg~~fegg~a-e~~~l~lGs~~fipgFe~~LvG~k~Ge~k~i~vtFP~dy~a~~LaGK----- 229 (441)
T COG0544 158 AENGDRVTIDFEGSV--DGEEFEGGKA-ENFSLELGSGRFIPGFEDQLVGMKAGEEKDIKVTFPEDYHAEELAGK----- 229 (441)
T ss_pred cccCCEEEEEEEEEE--cCeeccCccc-cCeEEEEcCCCchhhHHhhhccCcCCCeeEEEEEcccccchhHhCCC-----
Confidence 899999999999987 9998887544 78999999999999999999999999999998888888887766655
Q ss_pred CeEEEEEEEEeeeC
Q 011892 462 SWLEFDVDLVKVHR 475 (475)
Q Consensus 462 StLVFdVELL~VKk 475 (475)
+..|.|+|..|+.
T Consensus 230 -~a~F~V~vkeVk~ 242 (441)
T COG0544 230 -EATFKVKVKEVKK 242 (441)
T ss_pred -ceEEEEEEEEEee
Confidence 8899999999863
No 17
>KOG0545 consensus Aryl-hydrocarbon receptor-interacting protein [Posttranslational modification, protein turnover, chaperones]
Probab=97.46 E-value=2.3e-05 Score=78.51 Aligned_cols=81 Identities=19% Similarity=0.197 Sum_probs=66.7
Q ss_pred CCCeEEEEEeecCCCCCCCCCCCEEEEEEEEEEc-cCCeEEeccCCC-CCeEEecCCcchhhcHHHHHcCCccCcEEEEE
Q 011892 364 PNGLVIQKLGTGKPDGKVAAPGKKISVLYTGKLK-ENGQVFDSNLGS-TPLKFHLGGKEVIEGLNVGLEGMHVGEKRRLL 441 (475)
Q Consensus 364 pSGl~ykILkeGkgtG~~p~~GD~VtVhYtg~l~-~DGkVfDST~~~-~P~~f~LG~g~lIpGLEeAL~GMkvGEk~~Vi 441 (475)
-.|+..+||..|.|.-.....|..|.|||..... ..+++||++... .|+.+.+|...-+|-|+..|..|++++.+.|+
T Consensus 9 ~~gv~Kril~~G~g~l~e~~dGTrv~FHfrtl~~~e~~tviDDsRk~gkPmeiiiGkkFkL~VwE~il~tM~v~EvaqF~ 88 (329)
T KOG0545|consen 9 VEGVKKRILHGGTGELPEFIDGTRVIFHFRTLKCDEERTVIDDSRKVGKPMEIIIGKKFKLEVWEIILTTMRVHEVAQFW 88 (329)
T ss_pred chhhhHhhccCCCccCccccCCceEEEEEEecccCcccccccchhhcCCCeEEeeccccccHHHHHHHHHHhhhhHHHhh
Confidence 4589999999994323456699999999998872 235689988755 89999999999999999999999999998887
Q ss_pred EcC
Q 011892 442 IPP 444 (475)
Q Consensus 442 IPp 444 (475)
+..
T Consensus 89 ~d~ 91 (329)
T KOG0545|consen 89 CDT 91 (329)
T ss_pred hhh
Confidence 654
No 18
>KOG0549 consensus FKBP-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]
Probab=96.61 E-value=0.0013 Score=63.13 Aligned_cols=41 Identities=54% Similarity=0.997 Sum_probs=36.7
Q ss_pred EecCCcchhhcHHHHHcCCccCcEEEEEEcCCCCCCCCCCC
Q 011892 414 FHLGGKEVIEGLNVGLEGMHVGEKRRLLIPPSLGYGSGGDD 454 (475)
Q Consensus 414 f~LG~g~lIpGLEeAL~GMkvGEk~~ViIPp~LAYG~~G~~ 454 (475)
|.+|.+.+|+|++.+|.|||.|+++.++|||+++||..+..
T Consensus 1 ~~~g~~~vi~gm~~~~~g~c~ge~rkvv~pp~l~fg~~~~~ 41 (188)
T KOG0549|consen 1 FTLGQGFVIPGMDQALEGMCNGEKRKVVIPPHLGFGEGGRG 41 (188)
T ss_pred CcccceEEecCHHHHhhhhhccccceeccCCcccccccccc
Confidence 46788899999999999999999999999999999965443
No 19
>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=66.11 E-value=3.9 Score=35.83 Aligned_cols=23 Identities=17% Similarity=0.125 Sum_probs=17.8
Q ss_pred cccccccccCCeeeCCCCeEEEE
Q 011892 349 ENSSAEGKLSLLRTLPNGLVIQK 371 (475)
Q Consensus 349 e~~~~~~k~~~v~ttpSGl~ykI 371 (475)
.-.++|++.++|++++|||+|+|
T Consensus 102 ~fla~n~k~~GV~~t~SGLqY~V 124 (124)
T PF01346_consen 102 AFLAENAKKEGVKTTESGLQYKV 124 (124)
T ss_dssp HHHHHHHTSTTEEE-TTS-EEEE
T ss_pred HHHHHHcCCCCCEECCCCCeeeC
Confidence 34458899999999999999997
No 20
>PF08729 HUN: HPC2 and ubinuclein domain; InterPro: IPR014840 HPC2 is required for cell-cycle regulation of histone transcription []. It regulates transcription of the histone genes during the S-phase of the cell cycle by repressing transcription at other cell cycle stages. HPC2 mutants display synthetic interactions with FACT complex, which allows RNA Pol II to elongate through nucleosomes [].
Probab=38.98 E-value=15 Score=28.74 Aligned_cols=12 Identities=42% Similarity=0.758 Sum_probs=9.2
Q ss_pred CccCCCcccCCC
Q 011892 36 DKYDDSFINDAD 47 (475)
Q Consensus 36 d~y~d~fi~d~d 47 (475)
++.+|+||||+.
T Consensus 18 YD~~D~FIDDsE 29 (55)
T PF08729_consen 18 YDTDDPFIDDSE 29 (55)
T ss_pred ccCCCCCcCCHH
Confidence 444489999997
No 21
>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=35.09 E-value=47 Score=27.09 Aligned_cols=24 Identities=25% Similarity=0.393 Sum_probs=18.3
Q ss_pred hhhcHHHHHcCCccCcEEEEEEcC
Q 011892 421 VIEGLNVGLEGMHVGEKRRLLIPP 444 (475)
Q Consensus 421 lIpGLEeAL~GMkvGEk~~ViIPp 444 (475)
+.--|-.||.|.++|+.+.+.+|.
T Consensus 42 ~~SPLG~ALlG~~~Gd~v~~~~~~ 65 (77)
T PF01272_consen 42 IDSPLGKALLGKKVGDEVEVELPG 65 (77)
T ss_dssp TTSHHHHHHTT-BTT-EEEEEETT
T ss_pred ecCHHHHHhcCCCCCCEEEEEeCC
Confidence 445688999999999999998765
No 22
>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=33.84 E-value=1.4e+02 Score=27.93 Aligned_cols=24 Identities=21% Similarity=0.213 Sum_probs=19.8
Q ss_pred hhhcHHHHHcCCccCcEEEEEEcC
Q 011892 421 VIEGLNVGLEGMHVGEKRRLLIPP 444 (475)
Q Consensus 421 lIpGLEeAL~GMkvGEk~~ViIPp 444 (475)
+.--|-.||.|.++|+.+.+.+|.
T Consensus 119 ~~SPlG~ALlGk~~GD~v~v~~p~ 142 (156)
T TIGR01461 119 IDSPLARALLKKEVGDEVVVNTPA 142 (156)
T ss_pred CCCHHHHHHcCCCCCCEEEEEcCC
Confidence 445678999999999999997654
No 23
>PRK00226 greA transcription elongation factor GreA; Reviewed
Probab=29.84 E-value=1.5e+02 Score=27.52 Aligned_cols=24 Identities=21% Similarity=0.338 Sum_probs=19.8
Q ss_pred hhhcHHHHHcCCccCcEEEEEEcC
Q 011892 421 VIEGLNVGLEGMHVGEKRRLLIPP 444 (475)
Q Consensus 421 lIpGLEeAL~GMkvGEk~~ViIPp 444 (475)
+.--|-.||.|.++|+.+.|.+|.
T Consensus 122 ~~SPlG~aLlGk~~Gd~v~~~~p~ 145 (157)
T PRK00226 122 IESPIARALIGKKVGDTVEVTTPG 145 (157)
T ss_pred cCChHHHHHhCCCCCCEEEEEcCC
Confidence 445677999999999999997654
No 24
>PF15260 FAM219A: Protein family FAM219A
Probab=28.52 E-value=34 Score=31.42 Aligned_cols=22 Identities=59% Similarity=1.060 Sum_probs=19.1
Q ss_pred CccC-CCcccCCCCCCcCCCCCC
Q 011892 36 DKYD-DSFINDADLDIIPPSPVS 57 (475)
Q Consensus 36 d~y~-d~fi~d~d~e~~~~~~~~ 57 (475)
|||. |+--||.|+++++|.|+.
T Consensus 88 DGy~LDE~pDdEdLDLIPPk~~~ 110 (125)
T PF15260_consen 88 DGYRLDEIPDDEDLDLIPPKPVS 110 (125)
T ss_pred cccccccCCchhccccCCCcccc
Confidence 9999 666777799999999986
No 25
>KOG1824 consensus TATA-binding protein-interacting protein [General function prediction only]
Probab=24.86 E-value=35 Score=40.84 Aligned_cols=23 Identities=22% Similarity=0.449 Sum_probs=16.2
Q ss_pred ccccCCCCCCCccCCCcccCCCC
Q 011892 26 TERSTGHSDEDKYDDSFINDADL 48 (475)
Q Consensus 26 ~e~s~~~d~ed~y~d~fi~d~d~ 48 (475)
+..+.++.+||+|+|+|.||+|.
T Consensus 322 d~~~~ed~eDde~~deYsDDeD~ 344 (1233)
T KOG1824|consen 322 DAMFLEDEEDDEQDDEYSDDEDM 344 (1233)
T ss_pred hhhhhhccccchhccccccccch
Confidence 34455555677778899888884
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=23.05 E-value=1.3e+02 Score=27.69 Aligned_cols=25 Identities=24% Similarity=0.327 Sum_probs=20.4
Q ss_pred chhhcHHHHHcCCccCcEEEEEEcC
Q 011892 420 EVIEGLNVGLEGMHVGEKRRLLIPP 444 (475)
Q Consensus 420 ~lIpGLEeAL~GMkvGEk~~ViIPp 444 (475)
++.-.|-.||.|.++|+.+.+.+|.
T Consensus 116 S~~SPlG~ALlG~~~Gd~v~v~~p~ 140 (151)
T TIGR01462 116 SIDSPLGKALIGKKVGDVVEVQTPK 140 (151)
T ss_pred cCCCHHHHHHcCCCCCCEEEEEeCC
Confidence 3455678999999999999997655
No 27
>KOG1832 consensus HIV-1 Vpr-binding protein [Cell cycle control, cell division, chromosome partitioning]
Probab=23.05 E-value=48 Score=39.58 Aligned_cols=9 Identities=11% Similarity=-0.005 Sum_probs=4.3
Q ss_pred ccCcccccc
Q 011892 8 SFTIAERES 16 (475)
Q Consensus 8 ~~~~~e~ds 16 (475)
++++||+|.
T Consensus 1401 r~~~dd~De 1409 (1516)
T KOG1832|consen 1401 RPTDDDSDE 1409 (1516)
T ss_pred CCCccccCc
Confidence 345555443
No 28
>KOG3540 consensus Beta amyloid precursor protein [General function prediction only]
Probab=22.82 E-value=53 Score=36.54 Aligned_cols=30 Identities=23% Similarity=0.477 Sum_probs=23.2
Q ss_pred ccCcccccccccccCCCCCCCccCCCcccC
Q 011892 16 SYGEDIADTETERSTGHSDEDKYDDSFIND 45 (475)
Q Consensus 16 s~gedi~~t~~e~s~~~d~ed~y~d~fi~d 45 (475)
++.-|.|.++++++++.|.+|+|.|+|...
T Consensus 194 ~~~~~~~~~eede~dd~d~~d~~ede~~ee 223 (615)
T KOG3540|consen 194 TDKVDVAKTEEDEDDDDDYDDGYEDEYSEE 223 (615)
T ss_pred CCcccccccCcccCCccccccccccccccc
Confidence 455677888888888888889999988433
No 29
>PRK05892 nucleoside diphosphate kinase regulator; Provisional
Probab=22.17 E-value=1.8e+02 Score=27.35 Aligned_cols=24 Identities=21% Similarity=0.290 Sum_probs=19.7
Q ss_pred hhhcHHHHHcCCccCcEEEEEEcC
Q 011892 421 VIEGLNVGLEGMHVGEKRRLLIPP 444 (475)
Q Consensus 421 lIpGLEeAL~GMkvGEk~~ViIPp 444 (475)
+.--|-.||.|.++|+.+.|.+|.
T Consensus 121 ~~SPlG~ALlGk~vGD~v~v~~p~ 144 (158)
T PRK05892 121 ADSPLGQALAGHQAGDTVTYSTPQ 144 (158)
T ss_pred cCCHHHHHHhCCCCCCEEEEEcCC
Confidence 445678999999999999987654
No 30
>PF04931 DNA_pol_phi: DNA polymerase phi; InterPro: IPR007015 Proteins of this family are predominantly nucleolar. The majority are described as transcription factor transactivators. The family also includes the fifth essential DNA polymerase (Pol5p) of Schizosaccharomyces pombe (Fission yeast) and Saccharomyces cerevisiae (Baker's yeast) (2.7.7.7 from EC). Pol5p is localized exclusively to the nucleolus and binds near or at the enhancer region of rRNA-encoding DNA repeating units.; GO: 0003677 DNA binding, 0003887 DNA-directed DNA polymerase activity, 0006351 transcription, DNA-dependent
Probab=20.66 E-value=62 Score=37.58 Aligned_cols=38 Identities=21% Similarity=0.269 Sum_probs=0.0
Q ss_pred CcccccccCcccccccccccCCCCCCCccCCCcccCCC
Q 011892 10 TIAERESYGEDIADTETERSTGHSDEDKYDDSFINDAD 47 (475)
Q Consensus 10 ~~~e~ds~gedi~~t~~e~s~~~d~ed~y~d~fi~d~d 47 (475)
++||.|+...+-.+.|+|...+++++|+.+|+..+++|
T Consensus 659 d~ded~~~~~~d~~~~~e~d~e~~~~~e~~dd~e~~~~ 696 (784)
T PF04931_consen 659 DDDEDDEEDGEDDEDESEDDDEDEEEDEEEDDDEDDED 696 (784)
T ss_pred CCcccccccccccccccccccccccccccccccccccc
No 31
>KOG2236 consensus Uncharacterized conserved protein [Function unknown]
Probab=20.16 E-value=85 Score=34.70 Aligned_cols=25 Identities=24% Similarity=0.310 Sum_probs=12.6
Q ss_pred cCCCCCCCccCCCcccCCCCCCcCC
Q 011892 29 STGHSDEDKYDDSFINDADLDIIPP 53 (475)
Q Consensus 29 s~~~d~ed~y~d~fi~d~d~e~~~~ 53 (475)
+++..++|+.+++|.||+-.++..+
T Consensus 153 ~s~~~~~de~~~d~dddd~~e~~s~ 177 (483)
T KOG2236|consen 153 DSDKISEDEDDSDFDDDDVKEDRSP 177 (483)
T ss_pred ccccccCCccccccccccccccccc
Confidence 3333334555556666664555443
Done!