Query psy18101
Match_columns 126
No_of_seqs 187 out of 1431
Neff 7.7
Searched_HMMs 46136
Date Fri Aug 16 22:35:34 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy18101.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/18101hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG0544|consensus 99.9 1.9E-25 4.1E-30 144.0 8.8 87 39-125 2-92 (108)
2 COG0545 FkpA FKBP-type peptidy 99.9 7.8E-24 1.7E-28 153.8 9.3 85 36-123 99-187 (205)
3 KOG0549|consensus 99.9 6E-22 1.3E-26 141.5 10.0 89 36-124 66-159 (188)
4 PRK11570 peptidyl-prolyl cis-t 99.8 8.1E-20 1.8E-24 134.5 11.0 87 32-122 97-187 (206)
5 TIGR03516 ppisom_GldI peptidyl 99.8 1.9E-19 4.2E-24 129.8 11.4 87 36-123 67-158 (177)
6 KOG0552|consensus 99.8 1.4E-19 2.9E-24 134.0 10.3 88 34-122 116-208 (226)
7 PF00254 FKBP_C: FKBP-type pep 99.8 1.2E-18 2.7E-23 112.8 8.8 71 51-121 2-76 (94)
8 PRK10902 FKBP-type peptidyl-pr 99.8 6.9E-18 1.5E-22 128.6 10.9 84 37-123 145-232 (269)
9 PRK15095 FKBP-type peptidyl-pr 99.7 1.1E-16 2.4E-21 113.3 8.0 68 53-120 4-75 (156)
10 KOG0543|consensus 99.6 3.4E-15 7.3E-20 117.9 12.2 89 35-124 81-173 (397)
11 COG1047 SlpA FKBP-type peptidy 99.6 2.5E-15 5.5E-20 107.4 8.3 68 53-120 2-73 (174)
12 PRK10737 FKBP-type peptidyl-pr 99.6 3.4E-15 7.3E-20 109.1 8.4 68 53-120 2-72 (196)
13 TIGR00115 tig trigger factor. 98.9 1.3E-08 2.9E-13 81.4 8.8 70 53-123 146-217 (408)
14 KOG0543|consensus 98.8 6.5E-09 1.4E-13 82.6 5.4 60 46-105 1-63 (397)
15 PRK01490 tig trigger factor; P 98.8 3.4E-08 7.3E-13 79.7 8.9 70 53-123 157-228 (435)
16 COG0544 Tig FKBP-type peptidyl 98.5 4.2E-07 9E-12 73.9 7.5 61 54-115 158-222 (441)
17 KOG0545|consensus 98.4 1.6E-07 3.4E-12 71.2 1.7 79 35-113 7-92 (329)
18 KOG0549|consensus 97.7 1.6E-05 3.5E-10 57.4 1.1 41 82-122 1-41 (188)
19 COG1278 CspC Cold shock protei 68.1 11 0.00024 22.9 3.6 42 46-87 12-55 (67)
20 PF09122 DUF1930: Domain of un 57.6 18 0.00039 21.8 3.1 23 91-113 35-57 (68)
21 PF01272 GreA_GreB: Transcript 53.5 17 0.00036 22.2 2.7 25 89-113 42-66 (77)
22 PRK05753 nucleoside diphosphat 49.7 48 0.001 22.7 4.7 25 89-113 91-115 (137)
23 PHA02122 hypothetical protein 46.6 42 0.00092 19.8 3.4 37 31-74 21-57 (65)
24 TIGR01461 greB transcription e 46.4 93 0.002 21.8 5.9 25 89-113 119-143 (156)
25 TIGR03096 nitroso_cyanin nitro 44.2 1.1E+02 0.0023 21.3 6.9 67 34-115 40-111 (135)
26 PRK01885 greB transcription el 43.2 84 0.0018 22.1 5.2 24 90-113 122-145 (157)
27 COG0782 Uncharacterized conser 39.7 85 0.0018 21.9 4.8 53 53-111 78-137 (151)
28 PF12080 GldM_C: GldM C-termin 33.7 1.1E+02 0.0025 21.9 4.8 30 45-74 40-71 (181)
29 PRK09890 cold shock protein Cs 33.3 82 0.0018 18.9 3.4 41 46-86 15-57 (70)
30 PF03423 CBM_25: Carbohydrate 33.3 44 0.00094 21.0 2.3 57 57-116 1-61 (87)
31 PF00639 Rotamase: PPIC-type P 32.7 34 0.00074 21.4 1.7 26 84-109 57-82 (95)
32 PRK06342 transcription elongat 31.2 1.4E+02 0.003 21.1 4.8 20 89-108 130-149 (160)
33 TIGR01462 greA transcription e 31.1 60 0.0013 22.4 2.9 26 88-113 116-141 (151)
34 TIGR02925 cis_trans_EpsD pepti 31.1 42 0.00092 24.5 2.2 29 86-116 189-217 (232)
35 PRK00226 greA transcription el 30.1 59 0.0013 22.6 2.7 25 89-113 122-146 (157)
36 PRK00809 hypothetical protein; 29.2 67 0.0014 22.3 2.8 25 89-113 24-48 (144)
37 cd01090 Creatinase Creatine am 28.7 1.8E+02 0.004 21.2 5.3 52 52-106 75-135 (228)
38 TIGR00495 crvDNA_42K 42K curve 27.8 2.5E+02 0.0055 22.7 6.3 51 52-105 99-163 (389)
39 TIGR03769 P_ac_wall_RPT actino 27.6 1.1E+02 0.0024 16.5 4.0 25 58-82 15-39 (41)
40 PRK09774 fec operon regulator 26.5 1.4E+02 0.003 23.2 4.5 52 35-87 113-175 (319)
41 cd04454 S1_Rrp4_like S1_Rrp4_l 25.5 1.6E+02 0.0034 17.6 6.3 59 53-111 3-62 (82)
42 PRK04405 prsA peptidylprolyl i 25.1 41 0.0009 26.0 1.3 25 82-106 194-218 (298)
43 PLN02316 synthase/transferase 24.8 1E+02 0.0022 28.4 3.8 62 52-116 323-389 (1036)
44 PRK10354 RNA chaperone/anti-te 23.0 1.3E+02 0.0029 17.9 3.1 39 47-85 16-56 (70)
45 PF05688 DUF824: Salmonella re 22.8 1.6E+02 0.0034 16.6 3.8 35 52-87 7-41 (47)
46 COG0425 SirA Predicted redox p 22.5 1.1E+02 0.0025 18.8 2.7 22 92-113 21-42 (78)
47 TIGR03773 anch_rpt_wall putati 22.2 1.7E+02 0.0038 24.7 4.5 30 58-87 413-442 (513)
48 PRK05892 nucleoside diphosphat 22.2 99 0.0021 21.7 2.7 24 90-113 122-145 (158)
49 cd03420 SirA_RHOD_Pry_redox Si 22.1 1.1E+02 0.0024 18.0 2.6 20 93-112 16-35 (69)
50 COG4013 Uncharacterized protei 22.1 2.2E+02 0.0047 18.2 3.9 39 53-92 20-59 (91)
51 PRK14998 cold shock-like prote 22.0 1.7E+02 0.0038 17.7 3.5 40 46-85 12-53 (73)
52 COG0024 Map Methionine aminope 21.7 3.7E+02 0.0081 20.6 6.2 51 52-105 85-145 (255)
53 cd01088 MetAP2 Methionine Amin 21.5 3E+02 0.0065 21.0 5.5 52 52-106 69-126 (291)
54 TIGR00501 met_pdase_II methion 21.3 3.4E+02 0.0073 20.9 5.7 51 52-105 73-129 (295)
55 PRK10943 cold shock-like prote 21.0 1E+02 0.0023 18.4 2.3 39 47-85 15-55 (69)
56 cd03422 YedF YedF is a bacteri 20.7 1.2E+02 0.0026 17.9 2.6 20 93-112 16-35 (69)
57 PRK09937 stationary phase/star 20.5 1.7E+02 0.0038 17.8 3.3 39 47-85 13-53 (74)
58 PF04014 Antitoxin-MazE: Antid 20.3 1.6E+02 0.0035 15.8 4.2 24 89-113 11-34 (47)
59 PRK09507 cspE cold shock prote 20.0 1.9E+02 0.0041 17.2 3.3 40 46-85 14-55 (69)
No 1
>KOG0544|consensus
Probab=99.93 E-value=1.9e-25 Score=143.99 Aligned_cols=87 Identities=23% Similarity=0.453 Sum_probs=81.9
Q ss_pred CEEEEEEEcCCCCCCCCCCCEEEEEEEEEecCCcEEec----cccEEEEeCCCCcHHHHHHHhcCcCCCcEEEEEEcCCC
Q psy18101 39 HIKKKITKHGEPDTRPQRGDLCVISGFGKLEDDTLVET----FDNLEICVGDLELVHGMDYVLPLMEMGEECQIEITARF 114 (126)
Q Consensus 39 ~v~k~il~~G~g~~~p~~gd~V~v~y~~~~~dG~v~d~----~~p~~f~lG~~~li~gle~al~~M~~Ge~~~~~ip~~~ 114 (126)
++.++++++|+|...|+.||+|++||++.+.||+.||+ ++|+.|.+|.+++|+||++++..|.+||++.++|.|++
T Consensus 2 Gv~~~~i~~Gdg~tfpK~Gqtvt~hYtg~L~dG~kfDSs~dr~kPfkf~IGkgeVIkGwdegv~qmsvGekakLti~pd~ 81 (108)
T KOG0544|consen 2 GVEKQVISPGDGRTFPKKGQTVTVHYTGTLQDGKKFDSSRDRGKPFKFKIGKGEVIKGWDEGVAQMSVGEKAKLTISPDY 81 (108)
T ss_pred CceeEEeeCCCCcccCCCCCEEEEEEEeEecCCcEeecccccCCCeeEEecCcceeechhhcchhccccccceeeecccc
Confidence 58899999999988999999999999999999999985 47999999999999999999999999999999999999
Q ss_pred CcCCCCCCCCC
Q psy18101 115 GYGDKGEPIFK 125 (126)
Q Consensus 115 ayG~~G~~~~~ 125 (126)
|||..|.|+.+
T Consensus 82 aYG~~G~p~~I 92 (108)
T KOG0544|consen 82 AYGPRGHPGGI 92 (108)
T ss_pred ccCCCCCCCcc
Confidence 99999977643
No 2
>COG0545 FkpA FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]
Probab=99.90 E-value=7.8e-24 Score=153.77 Aligned_cols=85 Identities=26% Similarity=0.446 Sum_probs=79.5
Q ss_pred CCCCEEEEEEEcCCCCCCCCCCCEEEEEEEEEecCCcEEec----cccEEEEeCCCCcHHHHHHHhcCcCCCcEEEEEEc
Q psy18101 36 GSGHIKKKITKHGEPDTRPQRGDLCVISGFGKLEDDTLVET----FDNLEICVGDLELVHGMDYVLPLMEMGEECQIEIT 111 (126)
Q Consensus 36 ~~g~v~k~il~~G~g~~~p~~gd~V~v~y~~~~~dG~v~d~----~~p~~f~lG~~~li~gle~al~~M~~Ge~~~~~ip 111 (126)
-++++++++++.|+| ..|..+++|++||++++.||++||+ ++|+.|.+| ++|+||.++|.+|++|++++++||
T Consensus 99 ~~sgl~y~~~~~G~G-~~~~~~~~V~vhY~G~l~~G~vFDsS~~rg~p~~f~l~--~vI~Gw~egl~~M~vG~k~~l~IP 175 (205)
T COG0545 99 LPSGLQYKVLKAGDG-AAPKKGDTVTVHYTGTLIDGTVFDSSYDRGQPAEFPLG--GVIPGWDEGLQGMKVGGKRKLTIP 175 (205)
T ss_pred CCCCcEEEEEeccCC-CCCCCCCEEEEEEEEecCCCCccccccccCCCceeecC--CeeehHHHHHhhCCCCceEEEEeC
Confidence 355799999999999 6999999999999999999999986 489999997 899999999999999999999999
Q ss_pred CCCCcCCCCCCC
Q psy18101 112 ARFGYGDKGEPI 123 (126)
Q Consensus 112 ~~~ayG~~G~~~ 123 (126)
|++|||.+|.++
T Consensus 176 ~~laYG~~g~~g 187 (205)
T COG0545 176 PELAYGERGVPG 187 (205)
T ss_pred chhccCcCCCCC
Confidence 999999999766
No 3
>KOG0549|consensus
Probab=99.87 E-value=6e-22 Score=141.52 Aligned_cols=89 Identities=25% Similarity=0.386 Sum_probs=79.2
Q ss_pred CCCCEEEEEEEcCCCC-CCCCCCCEEEEEEEEEecCCcEEec----cccEEEEeCCCCcHHHHHHHhcCcCCCcEEEEEE
Q psy18101 36 GSGHIKKKITKHGEPD-TRPQRGDLCVISGFGKLEDDTLVET----FDNLEICVGDLELVHGMDYVLPLMEMGEECQIEI 110 (126)
Q Consensus 36 ~~g~v~k~il~~G~g~-~~p~~gd~V~v~y~~~~~dG~v~d~----~~p~~f~lG~~~li~gle~al~~M~~Ge~~~~~i 110 (126)
....+...++++-..+ .+.+.||.+.+||++.+.||++||+ ++|++|+||.+++|+||+.+|.+|++||++.+.|
T Consensus 66 ~~~~l~I~v~~~p~~C~~kak~GD~l~~HY~g~leDGt~fdSS~~rg~P~~f~LG~gqVIkG~Dqgl~gMCvGEkRkl~I 145 (188)
T KOG0549|consen 66 PDEELQIGVLKKPEECPEKAKKGDTLHVHYTGSLEDGTKFDSSYSRGAPFTFTLGTGQVIKGWDQGLLGMCVGEKRKLII 145 (188)
T ss_pred CCCceeEEEEECCccccccccCCCEEEEEEEEEecCCCEEeeeccCCCCEEEEeCCCceeccHhHHhhhhCcccceEEec
Confidence 3456777777775545 6788999999999999999999986 4799999999999999999999999999999999
Q ss_pred cCCCCcCCCCCCCC
Q psy18101 111 TARFGYGDKGEPIF 124 (126)
Q Consensus 111 p~~~ayG~~G~~~~ 124 (126)
||++|||++|+|+.
T Consensus 146 Pp~LgYG~~G~~~~ 159 (188)
T KOG0549|consen 146 PPHLGYGERGAPPK 159 (188)
T ss_pred CccccCccCCCCCC
Confidence 99999999998774
No 4
>PRK11570 peptidyl-prolyl cis-trans isomerase; Provisional
Probab=99.82 E-value=8.1e-20 Score=134.52 Aligned_cols=87 Identities=25% Similarity=0.407 Sum_probs=78.4
Q ss_pred eeecCCCCEEEEEEEcCCCCCCCCCCCEEEEEEEEEecCCcEEec----cccEEEEeCCCCcHHHHHHHhcCcCCCcEEE
Q psy18101 32 VDILGSGHIKKKITKHGEPDTRPQRGDLCVISGFGKLEDDTLVET----FDNLEICVGDLELVHGMDYVLPLMEMGEECQ 107 (126)
Q Consensus 32 ~~~~~~g~v~k~il~~G~g~~~p~~gd~V~v~y~~~~~dG~v~d~----~~p~~f~lG~~~li~gle~al~~M~~Ge~~~ 107 (126)
+..+. .+++++++++|+| ..|+.+|.|+|||++++.||++|++ ++|+.|.++ .+++||+++|.+|++|+++.
T Consensus 97 v~~t~-sGl~y~vi~~G~G-~~p~~~d~V~v~Y~g~l~dG~vfdss~~~g~P~~f~l~--~vipG~~eaL~~M~~G~k~~ 172 (206)
T PRK11570 97 VNSTE-SGLQFRVLTQGEG-AIPARTDRVRVHYTGKLIDGTVFDSSVARGEPAEFPVN--GVIPGWIEALTLMPVGSKWE 172 (206)
T ss_pred cEECC-CCcEEEEEeCCCC-CCCCCCCEEEEEEEEEECCCCEEEeccCCCCCeEEEee--chhhHHHHHHcCCCCCCEEE
Confidence 34444 4799999999999 5899999999999999999999985 369999995 69999999999999999999
Q ss_pred EEEcCCCCcCCCCCC
Q psy18101 108 IEITARFGYGDKGEP 122 (126)
Q Consensus 108 ~~ip~~~ayG~~G~~ 122 (126)
|.|||++|||++|++
T Consensus 173 ~~IP~~lAYG~~g~~ 187 (206)
T PRK11570 173 LTIPHELAYGERGAG 187 (206)
T ss_pred EEECHHHcCCCCCCC
Confidence 999999999999865
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=99.82 E-value=1.9e-19 Score=129.78 Aligned_cols=87 Identities=22% Similarity=0.234 Sum_probs=77.7
Q ss_pred CCCCEEEEEEEc--CCCCCCCCCCCEEEEEEEEEecCCcEEecc---ccEEEEeCCCCcHHHHHHHhcCcCCCcEEEEEE
Q psy18101 36 GSGHIKKKITKH--GEPDTRPQRGDLCVISGFGKLEDDTLVETF---DNLEICVGDLELVHGMDYVLPLMEMGEECQIEI 110 (126)
Q Consensus 36 ~~g~v~k~il~~--G~g~~~p~~gd~V~v~y~~~~~dG~v~d~~---~p~~f~lG~~~li~gle~al~~M~~Ge~~~~~i 110 (126)
.+.|+.+.++.. |+| ..|+.||.|++||++++.||++|++. .|+.|.+|.+++++||+++|.+|++||+++|.|
T Consensus 67 t~sGl~Y~v~~~~~g~g-~~p~~gd~V~v~Y~~~~~dG~v~~ss~~~~P~~f~vg~~~vi~Gl~e~L~~Mk~Ge~~~~~i 145 (177)
T TIGR03516 67 SQNGFWYYYNQKDTGEG-TTPEFGDLVTFEYDIRALDGDVIYSEEELGPQTYKVDQQDLFSGLRDGLKLMKEGETATFLF 145 (177)
T ss_pred CCCccEEEEEEecCCCC-CcCCCCCEEEEEEEEEeCCCCEEEeCCCCCCEEEEeCCcchhHHHHHHHcCCCCCCEEEEEE
Confidence 455788888866 555 58999999999999999999999854 599999999999999999999999999999999
Q ss_pred cCCCCcCCCCCCC
Q psy18101 111 TARFGYGDKGEPI 123 (126)
Q Consensus 111 p~~~ayG~~G~~~ 123 (126)
||++|||.+|.++
T Consensus 146 P~~~AYG~~g~~~ 158 (177)
T TIGR03516 146 PSHKAYGYYGDQN 158 (177)
T ss_pred CHHHcCCCCCCCC
Confidence 9999999998654
No 6
>KOG0552|consensus
Probab=99.81 E-value=1.4e-19 Score=134.04 Aligned_cols=88 Identities=22% Similarity=0.399 Sum_probs=81.6
Q ss_pred ecCCCCEEEEEEEcCCCCCCCCCCCEEEEEEEEEec-CCcEEec---cccEE-EEeCCCCcHHHHHHHhcCcCCCcEEEE
Q psy18101 34 ILGSGHIKKKITKHGEPDTRPQRGDLCVISGFGKLE-DDTLVET---FDNLE-ICVGDLELVHGMDYVLPLMEMGEECQI 108 (126)
Q Consensus 34 ~~~~g~v~k~il~~G~g~~~p~~gd~V~v~y~~~~~-dG~v~d~---~~p~~-f~lG~~~li~gle~al~~M~~Ge~~~~ 108 (126)
.+-.++++++-++.|+| ..|..|+.|.+||.+++. +|++|++ .+|+. |++|.+++|+||+.+|.+|++|.+++|
T Consensus 116 ~tl~~Gl~y~D~~vG~G-~~a~~G~rV~v~Y~Gkl~~~GkvFd~~~~~kp~~~f~lg~g~VIkG~d~gv~GMkvGGkRrv 194 (226)
T KOG0552|consen 116 RTLPGGLRYEDLRVGSG-PSAKKGKRVSVRYIGKLKGNGKVFDSNFGGKPFKLFRLGSGEVIKGWDVGVEGMKVGGKRRV 194 (226)
T ss_pred eecCCCcEEEEEEecCC-CCCCCCCEEEEEEEEEecCCCeEeecccCCCCccccccCCCCCCchHHHhhhhhccCCeeEE
Confidence 34567899999999999 699999999999999998 9999986 47888 999999999999999999999999999
Q ss_pred EEcCCCCcCCCCCC
Q psy18101 109 EITARFGYGDKGEP 122 (126)
Q Consensus 109 ~ip~~~ayG~~G~~ 122 (126)
+|||.+|||.+|.+
T Consensus 195 iIPp~lgYg~~g~~ 208 (226)
T KOG0552|consen 195 IIPPELGYGKKGVP 208 (226)
T ss_pred EeCccccccccCcC
Confidence 99999999998865
No 7
>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=99.78 E-value=1.2e-18 Score=112.81 Aligned_cols=71 Identities=27% Similarity=0.520 Sum_probs=66.6
Q ss_pred CCCCCCCCEEEEEEEEEecCCcEEecc----ccEEEEeCCCCcHHHHHHHhcCcCCCcEEEEEEcCCCCcCCCCC
Q psy18101 51 DTRPQRGDLCVISGFGKLEDDTLVETF----DNLEICVGDLELVHGMDYVLPLMEMGEECQIEITARFGYGDKGE 121 (126)
Q Consensus 51 ~~~p~~gd~V~v~y~~~~~dG~v~d~~----~p~~f~lG~~~li~gle~al~~M~~Ge~~~~~ip~~~ayG~~G~ 121 (126)
..+|+.||.|++||++++.||++|+++ .|+.|.+|.+++++||+++|.+|++||+++|.||++++||..+.
T Consensus 2 ~~~~~~gd~V~i~y~~~~~~g~~~~~~~~~~~~~~~~~g~~~~i~g~e~al~~m~~Ge~~~~~vp~~~ayg~~~~ 76 (94)
T PF00254_consen 2 PRTPKEGDTVTIHYTGRLEDGKVFDSSYQEGEPFEFRLGSGQVIPGLEEALIGMKVGEKREFYVPPELAYGEKGL 76 (94)
T ss_dssp SSSBSTTSEEEEEEEEEETTSEEEEETTTTTSEEEEETTSSSSSHHHHHHHTTSBTTEEEEEEEEGGGTTTTTTB
T ss_pred CccCCCCCEEEEEEEEEECCCcEEEEeeecCcceeeeeccCccccchhhhcccccCCCEeeeEeCChhhcCcccc
Confidence 357999999999999999999999865 79999999999999999999999999999999999999999886
No 8
>PRK10902 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional
Probab=99.76 E-value=6.9e-18 Score=128.59 Aligned_cols=84 Identities=23% Similarity=0.331 Sum_probs=76.2
Q ss_pred CCCEEEEEEEcCCCCCCCCCCCEEEEEEEEEecCCcEEec----cccEEEEeCCCCcHHHHHHHhcCcCCCcEEEEEEcC
Q psy18101 37 SGHIKKKITKHGEPDTRPQRGDLCVISGFGKLEDDTLVET----FDNLEICVGDLELVHGMDYVLPLMEMGEECQIEITA 112 (126)
Q Consensus 37 ~g~v~k~il~~G~g~~~p~~gd~V~v~y~~~~~dG~v~d~----~~p~~f~lG~~~li~gle~al~~M~~Ge~~~~~ip~ 112 (126)
+.|++|+|+++|+| ..|+.||.|.|||++++.||++|++ +.|+.|.++ .+++||+++|.+|++|+++.|+||+
T Consensus 145 ~sGl~y~Vi~~G~G-~~p~~gD~V~V~Y~g~l~dG~vfdss~~~g~p~~f~l~--~vipG~~EaL~~Mk~Gek~~l~IP~ 221 (269)
T PRK10902 145 STGLLYKVEKEGTG-EAPKDSDTVVVNYKGTLIDGKEFDNSYTRGEPLSFRLD--GVIPGWTEGLKNIKKGGKIKLVIPP 221 (269)
T ss_pred CCccEEEEEeCCCC-CCCCCCCEEEEEEEEEeCCCCEeeccccCCCceEEecC--CcchHHHHHHhcCCCCcEEEEEECc
Confidence 45799999999999 5899999999999999999999985 368888884 6999999999999999999999999
Q ss_pred CCCcCCCCCCC
Q psy18101 113 RFGYGDKGEPI 123 (126)
Q Consensus 113 ~~ayG~~G~~~ 123 (126)
+++||..|.++
T Consensus 222 ~laYG~~g~~g 232 (269)
T PRK10902 222 ELAYGKAGVPG 232 (269)
T ss_pred hhhCCCCCCCC
Confidence 99999998653
No 9
>PRK15095 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional
Probab=99.69 E-value=1.1e-16 Score=113.30 Aligned_cols=68 Identities=18% Similarity=0.225 Sum_probs=63.5
Q ss_pred CCCCCCEEEEEEEEEecCCcEEec----cccEEEEeCCCCcHHHHHHHhcCcCCCcEEEEEEcCCCCcCCCC
Q psy18101 53 RPQRGDLCVISGFGKLEDDTLVET----FDNLEICVGDLELVHGMDYVLPLMEMGEECQIEITARFGYGDKG 120 (126)
Q Consensus 53 ~p~~gd~V~v~y~~~~~dG~v~d~----~~p~~f~lG~~~li~gle~al~~M~~Ge~~~~~ip~~~ayG~~G 120 (126)
.++.|+.|++||++++.||++|++ +.|+.|.+|.+++++||+++|.+|++|+++.|.|||++|||++.
T Consensus 4 ~i~~~~~V~v~Y~~~~~dG~v~dst~~~~~P~~f~~G~g~vi~gle~aL~gm~~Ge~~~v~ipp~~ayG~~d 75 (156)
T PRK15095 4 SVQSNSAVLVHFTLKLDDGSTAESTRNNGKPALFRLGDGSLSEGLEQQLLGLKVGDKKTFSLEPEAAFGVPS 75 (156)
T ss_pred ccCCCCEEEEEEEEEeCCCCEEEECCCCCCCEEEEeCCCCccHHHHHHHcCCCCCCEEEEEEChHHhcCCCC
Confidence 578899999999999999999985 37999999999999999999999999999999999999999763
No 10
>KOG0543|consensus
Probab=99.64 E-value=3.4e-15 Score=117.91 Aligned_cols=89 Identities=30% Similarity=0.624 Sum_probs=77.0
Q ss_pred cCCCCEEEEEEEcCCC-CCCCCCCCEEEEEEEEEecCCcEEec-cccEEEEeCC-CCcHHHHHHHhcCcCCCcEEEEEEc
Q psy18101 35 LGSGHIKKKITKHGEP-DTRPQRGDLCVISGFGKLEDDTLVET-FDNLEICVGD-LELVHGMDYVLPLMEMGEECQIEIT 111 (126)
Q Consensus 35 ~~~g~v~k~il~~G~g-~~~p~~gd~V~v~y~~~~~dG~v~d~-~~p~~f~lG~-~~li~gle~al~~M~~Ge~~~~~ip 111 (126)
+-||+|.|+|+++|.| ..+|..|..|.+||.+++.|+ +|++ .-.+.|..|+ ..++.||+.||..|++||++.|+|+
T Consensus 81 l~Dg~iiKriir~G~gd~~~P~~g~~V~v~~~G~~~~~-~f~~~~~~fe~~~Ge~~~vi~Gle~al~~M~~GE~a~v~i~ 159 (397)
T KOG0543|consen 81 LLDGGIIKRIIREGEGDYSRPNKGAVVKVHLEGELEDG-VFDQRELRFEFGEGEDIDVIEGLEIALRMMKVGEVALVTID 159 (397)
T ss_pred ccCCceEEeeeecCCCCCCCCCCCcEEEEEEEEEECCc-ceeccccceEEecCCccchhHHHHHHHHhcCccceEEEEeC
Confidence 3499999999999999 479999999999999999888 5654 4567888887 4799999999999999999999999
Q ss_pred CCCCcCCC-CCCCC
Q psy18101 112 ARFGYGDK-GEPIF 124 (126)
Q Consensus 112 ~~~ayG~~-G~~~~ 124 (126)
|.||||+. ++++.
T Consensus 160 ~~YayG~~~~~~p~ 173 (397)
T KOG0543|consen 160 PKYAYGEEGGEPPL 173 (397)
T ss_pred cccccCCCCCCCCC
Confidence 99999944 45543
No 11
>COG1047 SlpA FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]
Probab=99.61 E-value=2.5e-15 Score=107.41 Aligned_cols=68 Identities=29% Similarity=0.440 Sum_probs=63.7
Q ss_pred CCCCCCEEEEEEEEEecCCcEEecc----ccEEEEeCCCCcHHHHHHHhcCcCCCcEEEEEEcCCCCcCCCC
Q psy18101 53 RPQRGDLCVISGFGKLEDDTLVETF----DNLEICVGDLELVHGMDYVLPLMEMGEECQIEITARFGYGDKG 120 (126)
Q Consensus 53 ~p~~gd~V~v~y~~~~~dG~v~d~~----~p~~f~lG~~~li~gle~al~~M~~Ge~~~~~ip~~~ayG~~G 120 (126)
+++.|+.|++||++++.||++||++ .|+.|.+|.+++++||++||.+|.+|++..+.|||+.|||++.
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 KIEKGDVVSLHYTLKVEDGEVVDTTDENYGPLTFIVGAGQLIPGLEEALLGKEVGEEFTVEIPPEDAFGEYD 73 (174)
T ss_pred cccCCCEEEEEEEEEecCCcEEEcccccCCCeEEEecCCCcchhHHHHHhCCCCCceeEEEeCchHhcCCCC
Confidence 4678999999999999999999864 6999999999999999999999999999999999999999863
No 12
>PRK10737 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional
Probab=99.60 E-value=3.4e-15 Score=109.09 Aligned_cols=68 Identities=21% Similarity=0.312 Sum_probs=63.6
Q ss_pred CCCCCCEEEEEEEEEecCCcEEecc---ccEEEEeCCCCcHHHHHHHhcCcCCCcEEEEEEcCCCCcCCCC
Q psy18101 53 RPQRGDLCVISGFGKLEDDTLVETF---DNLEICVGDLELVHGMDYVLPLMEMGEECQIEITARFGYGDKG 120 (126)
Q Consensus 53 ~p~~gd~V~v~y~~~~~dG~v~d~~---~p~~f~lG~~~li~gle~al~~M~~Ge~~~~~ip~~~ayG~~G 120 (126)
+++++++|+|+|++++.||++|+++ .|+.|.+|.++++|+|+++|.+|++|++++|+|+|+.|||++-
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 KVAKDLVVSLAYQVRTEDGVLVDESPVSAPLDYLHGHGSLISGLETALEGHEVGDKFDVAVGANDAYGQYD 72 (196)
T ss_pred ccCCCCEEEEEEEEEeCCCCEEEecCCCCCeEEEeCCCcchHHHHHHHcCCCCCCEEEEEEChHHhcCCCC
Confidence 4678999999999999999999864 7999999999999999999999999999999999999999863
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=98.86 E-value=1.3e-08 Score=81.41 Aligned_cols=70 Identities=24% Similarity=0.299 Sum_probs=61.7
Q ss_pred CCCCCCEEEEEEEEEecCCcEEec--cccEEEEeCCCCcHHHHHHHhcCcCCCcEEEEEEcCCCCcCCCCCCC
Q psy18101 53 RPQRGDLCVISGFGKLEDDTLVET--FDNLEICVGDLELVHGMDYVLPLMEMGEECQIEITARFGYGDKGEPI 123 (126)
Q Consensus 53 ~p~~gd~V~v~y~~~~~dG~v~d~--~~p~~f~lG~~~li~gle~al~~M~~Ge~~~~~ip~~~ayG~~G~~~ 123 (126)
.++.||.|+++|+++. ||+.|+. ..++.|.+|.+.+++||+++|.||++|+++.|.++....|+....+|
T Consensus 146 ~~~~gD~V~v~~~~~~-dg~~~~~~~~~~~~~~lg~~~~~~~~ee~L~G~k~Gd~~~~~v~~p~~~~~~~~~g 217 (408)
T TIGR00115 146 AAEKGDRVTIDFEGFI-DGEAFEGGKAENFSLELGSGQFIPGFEEQLVGMKAGEEKEIKVTFPEDYHAEELAG 217 (408)
T ss_pred ccCCCCEEEEEEEEEE-CCEECcCCCCCCeEEEECCCCcchhHHHHhCCCCCCCeeEEEecCccccCcccCCC
Confidence 5788999999999965 8988875 46899999999999999999999999999999999877888766544
No 14
>KOG0543|consensus
Probab=98.81 E-value=6.5e-09 Score=82.57 Aligned_cols=60 Identities=27% Similarity=0.392 Sum_probs=54.7
Q ss_pred EcCCCCCCCCCCCEEEEEEEEEecCCcEEecc---ccEEEEeCCCCcHHHHHHHhcCcCCCcE
Q psy18101 46 KHGEPDTRPQRGDLCVISGFGKLEDDTLVETF---DNLEICVGDLELVHGMDYVLPLMEMGEE 105 (126)
Q Consensus 46 ~~G~g~~~p~~gd~V~v~y~~~~~dG~v~d~~---~p~~f~lG~~~li~gle~al~~M~~Ge~ 105 (126)
++|.|+..|..||.|.+||++++.||+.||++ .|+.|.+|.+.+|.||+.++..|+.|+.
T Consensus 1 ~eg~g~~~p~~g~~v~~hytg~l~dgt~fdss~d~~~~~~~lg~g~vi~~~~~gv~tm~~g~~ 63 (397)
T KOG0543|consen 1 KEGTGTETPMTGDKVEVHYTGTLLDGTKFDSSRDGDPFKFDLGKGSVIKGWDLGVATMKKGEA 63 (397)
T ss_pred CCCCCccCCCCCceeEEEEeEEecCCeecccccCCCceeeecCCCcccccccccccccccccc
Confidence 46888889999999999999999999999864 5999999999999999999999998553
No 15
>PRK01490 tig trigger factor; Provisional
Probab=98.79 E-value=3.4e-08 Score=79.75 Aligned_cols=70 Identities=23% Similarity=0.303 Sum_probs=60.3
Q ss_pred CCCCCCEEEEEEEEEecCCcEEec--cccEEEEeCCCCcHHHHHHHhcCcCCCcEEEEEEcCCCCcCCCCCCC
Q psy18101 53 RPQRGDLCVISGFGKLEDDTLVET--FDNLEICVGDLELVHGMDYVLPLMEMGEECQIEITARFGYGDKGEPI 123 (126)
Q Consensus 53 ~p~~gd~V~v~y~~~~~dG~v~d~--~~p~~f~lG~~~li~gle~al~~M~~Ge~~~~~ip~~~ayG~~G~~~ 123 (126)
.++.||.|+++|.++. ||+.|+. ..++.|.+|.+.+++||+++|.||++|+++.|.++....|+.....|
T Consensus 157 ~~~~gD~V~vd~~~~~-~g~~~~~~~~~~~~~~lg~~~~~~~fee~L~G~k~Ge~~~~~~~~p~~~~~~~lag 228 (435)
T PRK01490 157 PAENGDRVTIDFVGSI-DGEEFEGGKAEDFSLELGSGRFIPGFEEQLVGMKAGEEKTIDVTFPEDYHAEDLAG 228 (435)
T ss_pred cCCCCCEEEEEEEEEE-CCEECcCCCCCceEEEEcCCCcchhHHHHhCCCCCCCeeEEEecCccccccccCCC
Confidence 4789999999999976 8888874 46899999999999999999999999999999998777776554433
No 16
>COG0544 Tig FKBP-type peptidyl-prolyl cis-trans isomerase (trigger factor) [Posttranslational modification, protein turnover, chaperones]
Probab=98.50 E-value=4.2e-07 Score=73.90 Aligned_cols=61 Identities=25% Similarity=0.336 Sum_probs=52.5
Q ss_pred CCCCCEEEEEEEEEecCCcEEecc--ccEEEEeCCCCcHHHHHHHhcCcCCCcEEEEEE--cCCCC
Q psy18101 54 PQRGDLCVISGFGKLEDDTLVETF--DNLEICVGDLELVHGMDYVLPLMEMGEECQIEI--TARFG 115 (126)
Q Consensus 54 p~~gd~V~v~y~~~~~dG~v~d~~--~p~~f~lG~~~li~gle~al~~M~~Ge~~~~~i--p~~~a 115 (126)
++.||.|+|+|.++ .||..|..+ +.+.+.||++++||||+.+|.||++|++..|.+ |.+|.
T Consensus 158 a~~gD~v~IDf~g~-iDg~~fegg~ae~~~l~lGs~~fipgFe~~LvG~k~Ge~k~i~vtFP~dy~ 222 (441)
T COG0544 158 AENGDRVTIDFEGS-VDGEEFEGGKAENFSLELGSGRFIPGFEDQLVGMKAGEEKDIKVTFPEDYH 222 (441)
T ss_pred cccCCEEEEEEEEE-EcCeeccCccccCeEEEEcCCCchhhHHhhhccCcCCCeeEEEEEcccccc
Confidence 78999999999994 699999754 689999999999999999999999999988544 54443
No 17
>KOG0545|consensus
Probab=98.36 E-value=1.6e-07 Score=71.23 Aligned_cols=79 Identities=19% Similarity=0.165 Sum_probs=67.2
Q ss_pred cCCCCEEEEEEEcCCCC-CCCCCCCEEEEEEEEEecC--CcEEec----cccEEEEeCCCCcHHHHHHHhcCcCCCcEEE
Q psy18101 35 LGSGHIKKKITKHGEPD-TRPQRGDLCVISGFGKLED--DTLVET----FDNLEICVGDLELVHGMDYVLPLMEMGEECQ 107 (126)
Q Consensus 35 ~~~g~v~k~il~~G~g~-~~p~~gd~V~v~y~~~~~d--G~v~d~----~~p~~f~lG~~~li~gle~al~~M~~Ge~~~ 107 (126)
+.-.+++|+|+..|.|. ....+|..|.+||.....+ ++++|+ ++|+.+++|.-.-++-||..|..|+++|.+.
T Consensus 7 l~~~gv~Kril~~G~g~l~e~~dGTrv~FHfrtl~~~e~~tviDDsRk~gkPmeiiiGkkFkL~VwE~il~tM~v~Evaq 86 (329)
T KOG0545|consen 7 LNVEGVKKRILHGGTGELPEFIDGTRVIFHFRTLKCDEERTVIDDSRKVGKPMEIIIGKKFKLEVWEIILTTMRVHEVAQ 86 (329)
T ss_pred ccchhhhHhhccCCCccCccccCCceEEEEEEecccCcccccccchhhcCCCeEEeeccccccHHHHHHHHHHhhhhHHH
Confidence 34457999999999995 4556899999999987654 468875 4899999999888999999999999999999
Q ss_pred EEEcCC
Q psy18101 108 IEITAR 113 (126)
Q Consensus 108 ~~ip~~ 113 (126)
|+|...
T Consensus 87 F~~d~~ 92 (329)
T KOG0545|consen 87 FWCDTI 92 (329)
T ss_pred hhhhhh
Confidence 998754
No 18
>KOG0549|consensus
Probab=97.66 E-value=1.6e-05 Score=57.39 Aligned_cols=41 Identities=29% Similarity=0.502 Sum_probs=36.8
Q ss_pred EEeCCCCcHHHHHHHhcCcCCCcEEEEEEcCCCCcCCCCCC
Q psy18101 82 ICVGDLELVHGMDYVLPLMEMGEECQIEITARFGYGDKGEP 122 (126)
Q Consensus 82 f~lG~~~li~gle~al~~M~~Ge~~~~~ip~~~ayG~~G~~ 122 (126)
|++|.+.+|++++.++.+|+.||+..+++||+++||..+..
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 45788899999999999999999999999999999966543
No 19
>COG1278 CspC Cold shock proteins [Transcription]
Probab=68.13 E-value=11 Score=22.93 Aligned_cols=42 Identities=12% Similarity=0.010 Sum_probs=29.6
Q ss_pred EcCCCCCCCCCC-CEEEEEEEEEecCC-cEEeccccEEEEeCCC
Q psy18101 46 KHGEPDTRPQRG-DLCVISGFGKLEDD-TLVETFDNLEICVGDL 87 (126)
Q Consensus 46 ~~G~g~~~p~~g-d~V~v~y~~~~~dG-~v~d~~~p~~f~lG~~ 87 (126)
.+|-|-..|..| .-|.|||+....+| +.+..++.+.|.+..+
T Consensus 12 ~KGfGFI~p~~G~~DvFVH~Sai~~~g~~~L~eGQ~V~f~~~~g 55 (67)
T COG1278 12 TKGFGFITPEDGGKDVFVHISAIQRAGFRTLREGQKVEFEVEQG 55 (67)
T ss_pred CCcceEcCCCCCCcCEEEEeeeeccCCCcccCCCCEEEEEEecC
Confidence 356666778888 68999999865555 5566667777777654
No 20
>PF09122 DUF1930: Domain of unknown function (DUF1930); InterPro: IPR015206 This entry represents a domain found in 3-mercaptopyruvate sulphurtransferase which has no known function. This domain adopts a structure consisting of a four-stranded antiparallel beta-sheet and an alpha-helix, arranged in a beta(2)-alpha-beta(2) fashion, and bearing a remarkable structural similarity to the FK506-binding protein class of peptidylprolyl cis/trans-isomerase []. ; PDB: 1OKG_A.
Probab=57.64 E-value=18 Score=21.85 Aligned_cols=23 Identities=17% Similarity=0.340 Sum_probs=17.5
Q ss_pred HHHHHHhcCcCCCcEEEEEEcCC
Q psy18101 91 HGMDYVLPLMEMGEECQIEITAR 113 (126)
Q Consensus 91 ~gle~al~~M~~Ge~~~~~ip~~ 113 (126)
+-+..|+..|..||++.+...+.
T Consensus 35 ~El~sA~~HlH~GEkA~V~FkS~ 57 (68)
T PF09122_consen 35 AELKSALVHLHIGEKAQVFFKSQ 57 (68)
T ss_dssp HHHHHHHTT-BTT-EEEEEETTS
T ss_pred HHHHHHHHHhhcCceeEEEEecC
Confidence 45778999999999999988654
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=53.50 E-value=17 Score=22.18 Aligned_cols=25 Identities=16% Similarity=0.287 Sum_probs=19.1
Q ss_pred cHHHHHHHhcCcCCCcEEEEEEcCC
Q psy18101 89 LVHGMDYVLPLMEMGEECQIEITAR 113 (126)
Q Consensus 89 li~gle~al~~M~~Ge~~~~~ip~~ 113 (126)
+..-|-.||.+.++|+.+.+.+|..
T Consensus 42 ~~SPLG~ALlG~~~Gd~v~~~~~~g 66 (77)
T PF01272_consen 42 IDSPLGKALLGKKVGDEVEVELPGG 66 (77)
T ss_dssp TTSHHHHHHTT-BTT-EEEEEETTB
T ss_pred ecCHHHHHhcCCCCCCEEEEEeCCc
Confidence 3456889999999999999998753
No 22
>PRK05753 nucleoside diphosphate kinase regulator; Provisional
Probab=49.67 E-value=48 Score=22.73 Aligned_cols=25 Identities=8% Similarity=0.150 Sum_probs=21.1
Q ss_pred cHHHHHHHhcCcCCCcEEEEEEcCC
Q psy18101 89 LVHGMDYVLPLMEMGEECQIEITAR 113 (126)
Q Consensus 89 li~gle~al~~M~~Ge~~~~~ip~~ 113 (126)
+..-+-.||.|.++|+.+.+..|..
T Consensus 91 i~SPlG~ALlG~~~Gd~v~v~~p~G 115 (137)
T PRK05753 91 VLAPVGAALLGLSVGQSIDWPLPGG 115 (137)
T ss_pred ccCHHHHHHcCCCCCCEEEEECCCC
Confidence 4567889999999999999887753
No 23
>PHA02122 hypothetical protein
Probab=46.58 E-value=42 Score=19.78 Aligned_cols=37 Identities=19% Similarity=0.347 Sum_probs=24.2
Q ss_pred eeeecCCCCEEEEEEEcCCCCCCCCCCCEEEEEEEEEecCCcEE
Q psy18101 31 WVDILGSGHIKKKITKHGEPDTRPQRGDLCVISGFGKLEDDTLV 74 (126)
Q Consensus 31 ~~~~~~~g~v~k~il~~G~g~~~p~~gd~V~v~y~~~~~dG~v~ 74 (126)
++.+++++ +--.|++. .-..||.|.++|.... ||+.|
T Consensus 21 fi~l~g~~-~~~iiihs-----~~~~gd~v~vn~e~~~-ng~l~ 57 (65)
T PHA02122 21 FIGLLGDG-CENIIIHS-----FKDDGDEVIVNFELVV-NGKLI 57 (65)
T ss_pred HHHhhCCC-CCcEEEEe-----eccCCCEEEEEEEEEE-CCEEE
Confidence 45556664 44445543 2346999999999864 78766
No 24
>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=46.40 E-value=93 Score=21.79 Aligned_cols=25 Identities=20% Similarity=0.250 Sum_probs=21.2
Q ss_pred cHHHHHHHhcCcCCCcEEEEEEcCC
Q psy18101 89 LVHGMDYVLPLMEMGEECQIEITAR 113 (126)
Q Consensus 89 li~gle~al~~M~~Ge~~~~~ip~~ 113 (126)
+..-+-.||.|.++||.+.+..|..
T Consensus 119 ~~SPlG~ALlGk~~GD~v~v~~p~g 143 (156)
T TIGR01461 119 IDSPLARALLKKEVGDEVVVNTPAG 143 (156)
T ss_pred CCCHHHHHHcCCCCCCEEEEEcCCC
Confidence 4456889999999999999988764
No 25
>TIGR03096 nitroso_cyanin nitrosocyanin. Nitrosocyanin, as described from the obligate chemolithoautotroph Nitrosomonas europaea, is a red copper protein of unknown function with sequence similarity to a number of blue copper redox proteins.
Probab=44.22 E-value=1.1e+02 Score=21.25 Aligned_cols=67 Identities=12% Similarity=0.065 Sum_probs=42.0
Q ss_pred ecCCCCEEEEEEEcCCCC-----CCCCCCCEEEEEEEEEecCCcEEeccccEEEEeCCCCcHHHHHHHhcCcCCCcEEEE
Q psy18101 34 ILGSGHIKKKITKHGEPD-----TRPQRGDLCVISGFGKLEDDTLVETFDNLEICVGDLELVHGMDYVLPLMEMGEECQI 108 (126)
Q Consensus 34 ~~~~g~v~k~il~~G~g~-----~~p~~gd~V~v~y~~~~~dG~v~d~~~p~~f~lG~~~li~gle~al~~M~~Ge~~~~ 108 (126)
.++-+++..+.++.|++. ..++.||.|+++++ ..|+. +-.|.+... ++ -..+.+|+++.+
T Consensus 40 ~~~~~~~~~~~i~a~n~~~~P~~I~VkaGD~Vtl~vt--N~d~~------~H~f~i~~~----gi---s~~I~pGet~Ti 104 (135)
T TIGR03096 40 ELNVEGVTVKNIRAFNVLNEPEALVVKKGTPVKVTVE--NKSPI------SEGFSIDAY----GI---SEVIKAGETKTI 104 (135)
T ss_pred EEEeCCEEEEEEEeeeeEEcCCEEEECCCCEEEEEEE--eCCCC------ccceEECCC----Cc---ceEECCCCeEEE
Confidence 455667888888888774 35688999999986 33331 333333321 12 234567888888
Q ss_pred EEcCCCC
Q psy18101 109 EITARFG 115 (126)
Q Consensus 109 ~ip~~~a 115 (126)
.+++..+
T Consensus 105 tF~adKp 111 (135)
T TIGR03096 105 SFKADKA 111 (135)
T ss_pred EEECCCC
Confidence 8766533
No 26
>PRK01885 greB transcription elongation factor GreB; Reviewed
Probab=43.22 E-value=84 Score=22.05 Aligned_cols=24 Identities=25% Similarity=0.263 Sum_probs=20.7
Q ss_pred HHHHHHHhcCcCCCcEEEEEEcCC
Q psy18101 90 VHGMDYVLPLMEMGEECQIEITAR 113 (126)
Q Consensus 90 i~gle~al~~M~~Ge~~~~~ip~~ 113 (126)
..-+-.||.|.++|+.+.+.+|..
T Consensus 122 ~SPlG~ALlGk~vGd~v~v~~p~g 145 (157)
T PRK01885 122 DSPMARALLKKEVGDEVTVNTPAG 145 (157)
T ss_pred cCHHHHHHhCCCCCCEEEEEcCCC
Confidence 456889999999999999988764
No 27
>COG0782 Uncharacterized conserved protein, YhbC family [Function unknown]
Probab=39.66 E-value=85 Score=21.92 Aligned_cols=53 Identities=13% Similarity=0.198 Sum_probs=33.1
Q ss_pred CCCCCCEEEEEEEEEecCCcEEe-------ccccEEEEeCCCCcHHHHHHHhcCcCCCcEEEEEEc
Q psy18101 53 RPQRGDLCVISGFGKLEDDTLVE-------TFDNLEICVGDLELVHGMDYVLPLMEMGEECQIEIT 111 (126)
Q Consensus 53 ~p~~gd~V~v~y~~~~~dG~v~d-------~~~p~~f~lG~~~li~gle~al~~M~~Ge~~~~~ip 111 (126)
.+..|++|++.... +|+... ...| .-|.=.+..-+-.||.+.++|+.+.+..|
T Consensus 78 ~V~~Gs~V~~~~~~---~ge~~~~~iVg~~ead~---~~~~IS~~SPig~aLlGk~vGd~v~v~~p 137 (151)
T COG0782 78 VVTFGSTVTLENLD---DGEEVTYTIVGPDEADP---AKGKISVDSPLGRALLGKKVGDTVEVNTP 137 (151)
T ss_pred EEecCCEEEEEECC---CCCEEEEEEEccccccc---ccCceeccCHHHHHHhCCCCCCEEEEecC
Confidence 56778888776532 243321 1122 11211345568899999999999999887
No 28
>PF12080 GldM_C: GldM C-terminal domain; InterPro: IPR022719 This domain is found in bacteria at the C terminus of the GldM protein. This domain is typically between 169 to 182 amino acids in length and has two completely conserved residues (Y and N) that may be functionally important. GldM, is named for the member from Bacteriodetes Flavobacterium johnsoniae, which is required for a type of rapid gliding motility found in certain members of the Bacteriodetes [].
Probab=33.71 E-value=1.1e+02 Score=21.89 Aligned_cols=30 Identities=27% Similarity=0.261 Sum_probs=20.9
Q ss_pred EEcCCC-C-CCCCCCCEEEEEEEEEecCCcEE
Q psy18101 45 TKHGEP-D-TRPQRGDLCVISGFGKLEDDTLV 74 (126)
Q Consensus 45 l~~G~g-~-~~p~~gd~V~v~y~~~~~dG~v~ 74 (126)
.+.|.+ + ..|..|..|+|+.++++.+|+.+
T Consensus 40 ~~~g~~~y~~~P~~g~~v~I~Vs~~~~~g~~~ 71 (181)
T PF12080_consen 40 SKSGGGKYIARPTSGKEVTITVSATNPDGKGV 71 (181)
T ss_pred EecCCCcEEEEeCCCCeEEEEEEEEecCCCce
Confidence 344445 3 46767899999999988867433
No 29
>PRK09890 cold shock protein CspG; Provisional
Probab=33.32 E-value=82 Score=18.91 Aligned_cols=41 Identities=10% Similarity=0.125 Sum_probs=24.0
Q ss_pred EcCCCCCCCCCC-CEEEEEEEEEecCC-cEEeccccEEEEeCC
Q psy18101 46 KHGEPDTRPQRG-DLCVISGFGKLEDD-TLVETFDNLEICVGD 86 (126)
Q Consensus 46 ~~G~g~~~p~~g-d~V~v~y~~~~~dG-~v~d~~~p~~f~lG~ 86 (126)
.+|-|-..|..| .-|.+|++....+| ..+..++.+.|.+..
T Consensus 15 ~kGfGFI~~~~g~~dvFvH~s~l~~~~~~~l~~G~~V~f~~~~ 57 (70)
T PRK09890 15 DKGFGFITPDDGSKDVFVHFTAIQSNEFRTLNENQKVEFSIEQ 57 (70)
T ss_pred CCCcEEEecCCCCceEEEEEeeeccCCCCCCCCCCEEEEEEEE
Confidence 356665555554 67888888744444 334445566665543
No 30
>PF03423 CBM_25: Carbohydrate binding domain (family 25); InterPro: IPR005085 A carbohydrate-binding module (CBM) is defined as a contiguous amino acid sequence within a carbohydrate-active enzyme with a discreet fold having carbohydrate-binding activity. A few exceptions are CBMs in cellulosomal scaffolding proteins and rare instances of independent putative CBMs. The requirement of CBMs existing as modules within larger enzymes sets this class of carbohydrate-binding protein apart from other non-catalytic sugar binding proteins such as lectins and sugar transport proteins. CBMs were previously classified as cellulose-binding domains (CBDs) based on the initial discovery of several modules that bound cellulose [, ]. However, additional modules in carbohydrate-active enzymes are continually being found that bind carbohydrates other than cellulose yet otherwise meet the CBM criteria, hence the need to reclassify these polypeptides using more inclusive terminology. Previous classification of cellulose-binding domains were based on amino acid similarity. Groupings of CBDs were called "Types" and numbered with roman numerals (e.g. Type I or Type II CBDs). In keeping with the glycoside hydrolase classification, these groupings are now called families and numbered with Arabic numerals. Families 1 to 13 are the same as Types I to XIII. For a detailed review on the structure and binding modes of CBMs see []. This entry represents CBM25 from CAZY which has a starch-binding function as has been demonstrated in one case.; PDB: 2LAB_A 2C3X_B 2C3V_A 2C3W_C 2LAA_A.
Probab=33.29 E-value=44 Score=20.98 Aligned_cols=57 Identities=14% Similarity=0.112 Sum_probs=24.4
Q ss_pred CCEEEEEEEEEecCCcEEeccccEEEEeCCCCcHHHHHHHhcCcCC---CcEEEEEEc-CCCCc
Q psy18101 57 GDLCVISGFGKLEDDTLVETFDNLEICVGDLELVHGMDYVLPLMEM---GEECQIEIT-ARFGY 116 (126)
Q Consensus 57 gd~V~v~y~~~~~dG~v~d~~~p~~f~lG~~~li~gle~al~~M~~---Ge~~~~~ip-~~~ay 116 (126)
|+.|+|.|...+. .+.....+.+..|-+..-..-...+..|+. +..+..+|. |+.||
T Consensus 1 G~~vtVyYn~~~~---~l~g~~~v~~~~G~n~W~~~~~~~m~~~~~~~~~~~~~~tv~vP~~a~ 61 (87)
T PF03423_consen 1 GETVTVYYNPSLT---ALSGAPNVHLHGGFNRWTHVPGFGMTKMCVPDEGGWWKATVDVPEDAY 61 (87)
T ss_dssp -SEEEEEE---E----SSS-S-EEEEEETTS-B-SSS-EE-EEESS---TTEEEEEEE--TTTS
T ss_pred CCEEEEEEEeCCC---CCCCCCcEEEEecCCCCCcCCCCCcceeeeeecCCEEEEEEEEcCCce
Confidence 6789999975321 111123455666655433222234555554 666666553 23454
No 31
>PF00639 Rotamase: PPIC-type PPIASE domain; InterPro: IPR000297 Peptidylprolyl isomerase (5.2.1.8 from EC) is an enzyme that accelerates protein folding by catalyzing the cis-trans isomerization of proline imidic peptide bonds in oligopeptides []. It has been reported in bacteria and eukayotes. Synonyms for proteins with this domain are: Peptidylprolyl isomerase, Peptidyl-prolyl cis-trans isomerase, PPIase, rotamase, cyclophilin, FKBP65.; GO: 0016853 isomerase activity; PDB: 2JZV_A 2PV3_B 1M5Y_A 2PV2_B 2PV1_A 1JNS_A 1JNT_A 3KAB_A 2ZR6_A 2XPB_A ....
Probab=32.74 E-value=34 Score=21.40 Aligned_cols=26 Identities=15% Similarity=0.109 Sum_probs=21.7
Q ss_pred eCCCCcHHHHHHHhcCcCCCcEEEEE
Q psy18101 84 VGDLELVHGMDYVLPLMEMGEECQIE 109 (126)
Q Consensus 84 lG~~~li~gle~al~~M~~Ge~~~~~ 109 (126)
+..+.+.+.|+.+|..|++|+.....
T Consensus 57 ~~~~~l~~~~~~~~~~l~~Gevs~pi 82 (95)
T PF00639_consen 57 ISRGQLPPEFEKALFALKPGEVSKPI 82 (95)
T ss_dssp EETTSSBHHHHHHHHTSTTTSBEEEE
T ss_pred ccCCcccHHHHHHHHhCCCCCcCCCE
Confidence 34468999999999999999987644
No 32
>PRK06342 transcription elongation factor regulatory protein; Validated
Probab=31.22 E-value=1.4e+02 Score=21.10 Aligned_cols=20 Identities=15% Similarity=0.157 Sum_probs=17.1
Q ss_pred cHHHHHHHhcCcCCCcEEEE
Q psy18101 89 LVHGMDYVLPLMEMGEECQI 108 (126)
Q Consensus 89 li~gle~al~~M~~Ge~~~~ 108 (126)
+..-+-.||.|.++|+.+.+
T Consensus 130 ~~SPlG~ALlGk~vGD~V~v 149 (160)
T PRK06342 130 YVSPVARALMGKAVGDVVSV 149 (160)
T ss_pred ccCHHHHHHcCCCCCCEEEE
Confidence 44568899999999999987
No 33
>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=31.15 E-value=60 Score=22.45 Aligned_cols=26 Identities=8% Similarity=0.125 Sum_probs=21.7
Q ss_pred CcHHHHHHHhcCcCCCcEEEEEEcCC
Q psy18101 88 ELVHGMDYVLPLMEMGEECQIEITAR 113 (126)
Q Consensus 88 ~li~gle~al~~M~~Ge~~~~~ip~~ 113 (126)
.+..-+-.||.|.++|+.+.+..|..
T Consensus 116 S~~SPlG~ALlG~~~Gd~v~v~~p~g 141 (151)
T TIGR01462 116 SIDSPLGKALIGKKVGDVVEVQTPKG 141 (151)
T ss_pred cCCCHHHHHHcCCCCCCEEEEEeCCC
Confidence 34566889999999999999988764
No 34
>TIGR02925 cis_trans_EpsD peptidyl-prolyl cis-trans isomerase, EpsD family. Members of this family belong to the peptidyl-prolyl cis-trans isomerase family and are found in loci associated with exopolysaccharide biosynthesis. All members are encoded near a homolog of EpsH, as detected by TIGR02602.
Probab=31.06 E-value=42 Score=24.46 Aligned_cols=29 Identities=14% Similarity=0.109 Sum_probs=23.2
Q ss_pred CCCcHHHHHHHhcCcCCCcEEEEEEcCCCCc
Q psy18101 86 DLELVHGMDYVLPLMEMGEECQIEITARFGY 116 (126)
Q Consensus 86 ~~~li~gle~al~~M~~Ge~~~~~ip~~~ay 116 (126)
.+++.+.|..++..|++|+.. . |....+|
T Consensus 189 ~~~l~~~~~~a~~~l~~G~is-~-v~s~~G~ 217 (232)
T TIGR02925 189 AEQLPAEILAVLAKLKPGAPL-V-VQGPNNV 217 (232)
T ss_pred hhhCCHHHHHHHHhCCCCCeE-E-eecCCce
Confidence 457999999999999999986 3 6665555
No 35
>PRK00226 greA transcription elongation factor GreA; Reviewed
Probab=30.06 E-value=59 Score=22.62 Aligned_cols=25 Identities=8% Similarity=0.147 Sum_probs=21.1
Q ss_pred cHHHHHHHhcCcCCCcEEEEEEcCC
Q psy18101 89 LVHGMDYVLPLMEMGEECQIEITAR 113 (126)
Q Consensus 89 li~gle~al~~M~~Ge~~~~~ip~~ 113 (126)
+..-+-.+|.|.++|+.+.+..|..
T Consensus 122 ~~SPlG~aLlGk~~Gd~v~~~~p~g 146 (157)
T PRK00226 122 IESPIARALIGKKVGDTVEVTTPGG 146 (157)
T ss_pred cCChHHHHHhCCCCCCEEEEEcCCC
Confidence 4456889999999999999988764
No 36
>PRK00809 hypothetical protein; Provisional
Probab=29.20 E-value=67 Score=22.29 Aligned_cols=25 Identities=8% Similarity=0.163 Sum_probs=19.6
Q ss_pred cHHHHHHHhcCcCCCcEEEEEEcCC
Q psy18101 89 LVHGMDYVLPLMEMGEECQIEITAR 113 (126)
Q Consensus 89 li~gle~al~~M~~Ge~~~~~ip~~ 113 (126)
+..+=...|..|++||.+.++.+..
T Consensus 24 ~~~~~rn~lr~Mk~GD~v~fYhs~~ 48 (144)
T PRK00809 24 VPERYKNTIEKVKPGDKLIIYVSQE 48 (144)
T ss_pred cchhhhhHHhhCCCCCEEEEEECCc
Confidence 3445556777899999999999876
No 37
>cd01090 Creatinase Creatine amidinohydrolase. E.C.3.5.3.3. Hydrolyzes creatine to sarcosine and urea.
Probab=28.72 E-value=1.8e+02 Score=21.23 Aligned_cols=52 Identities=19% Similarity=0.333 Sum_probs=34.0
Q ss_pred CCCCCCCEEEEEEEEEecCCcEEeccccEEEEeCCC---------CcHHHHHHHhcCcCCCcEE
Q psy18101 52 TRPQRGDLCVISGFGKLEDDTLVETFDNLEICVGDL---------ELVHGMDYVLPLMEMGEEC 106 (126)
Q Consensus 52 ~~p~~gd~V~v~y~~~~~dG~v~d~~~p~~f~lG~~---------~li~gle~al~~M~~Ge~~ 106 (126)
..+++||.|.+.+.+.+ +|-..|. ..+|.+|+. .+..+++.++..+|+|-++
T Consensus 75 r~l~~GD~v~~d~g~~~-~GY~ad~--~RT~~vG~~~~~~~~~~~~~~ea~~~~~~~~rpG~~~ 135 (228)
T cd01090 75 RKVQRGDILSLNCFPMI-AGYYTAL--ERTLFLDEVSDAHLKIWEANVAVHERGLELIKPGARC 135 (228)
T ss_pred cccCCCCEEEEEEeEEE-CCEeeee--EEEEECCCCCHHHHHHHHHHHHHHHHHHHHcCCCCcH
Confidence 56789999999988753 6654442 245556642 2345667777777877653
No 38
>TIGR00495 crvDNA_42K 42K curved DNA binding protein. Proteins identified by this model have been identified in a number of species as a nuclear (but not nucleolar) protein with a cell cycle dependence. Various names given to members of this family have included cell cycle protein p38-2G4, DNA-binding protein GBP16, and proliferation-associated protein 1. This protein is closely related to methionine aminopeptidase, a cobolt-binding protein.
Probab=27.85 E-value=2.5e+02 Score=22.67 Aligned_cols=51 Identities=18% Similarity=0.193 Sum_probs=34.0
Q ss_pred CCCCCCCEEEEEEEEEecCCcEEeccccEEEEeCCC----------CcH----HHHHHHhcCcCCCcE
Q psy18101 52 TRPQRGDLCVISGFGKLEDDTLVETFDNLEICVGDL----------ELV----HGMDYVLPLMEMGEE 105 (126)
Q Consensus 52 ~~p~~gd~V~v~y~~~~~dG~v~d~~~p~~f~lG~~----------~li----~gle~al~~M~~Ge~ 105 (126)
...+.||.|.|++-+.. ||-..|.. .+|.+|.. +++ .+++.++..|++|-+
T Consensus 99 ~~Lk~GDvVkIDlG~~i-dGY~aD~a--rTv~vG~~~~~~~t~~~~~l~~aa~~A~~aai~~vkPG~~ 163 (389)
T TIGR00495 99 YILKEGDVVKIDLGCHI-DGFIALVA--HTFVVGVAQEEPVTGRKADVIAAAHLAAEAALRLVKPGNT 163 (389)
T ss_pred cCcCCCCEEEEEEEEEE-CCEEEEEE--EEEEECCcccccCCHHHHHHHHHHHHHHHHHHHHhCCCCc
Confidence 46789999999987744 77655543 55666731 122 456678888888864
No 39
>TIGR03769 P_ac_wall_RPT actinobacterial surface-anchored protein domain. This model describes a repeat domain that one to three times in Actinobacterial proteins, some of which have LPXTG-type sortase recognition motifs for covalent attachment to the Gram-positive cell wall. Where it occurs with duplication in an LPXTG-anchored protein, it tends to be adjacent to the substrate-binding protein of the gene trio of an ABC transporter system, where that substrate-binding protein has a single copy of this same domain. This arrangement suggests a substrate-binding relay system, with the LPXTG protein acting as a substrate receptor.
Probab=27.57 E-value=1.1e+02 Score=16.50 Aligned_cols=25 Identities=12% Similarity=0.121 Sum_probs=14.6
Q ss_pred CEEEEEEEEEecCCcEEeccccEEE
Q psy18101 58 DLCVISGFGKLEDDTLVETFDNLEI 82 (126)
Q Consensus 58 d~V~v~y~~~~~dG~v~d~~~p~~f 82 (126)
-.+.++.++.+.||++......+.|
T Consensus 15 Y~l~~~a~~~~~~G~~~s~~~t~tf 39 (41)
T TIGR03769 15 YTLTVQATATLTDGKVSSDPQTLTF 39 (41)
T ss_pred EEEEEEEEEEeCCCcEecCCEEEEE
Confidence 3566777777788884333334444
No 40
>PRK09774 fec operon regulator FecR; Reviewed
Probab=26.45 E-value=1.4e+02 Score=23.23 Aligned_cols=52 Identities=6% Similarity=0.006 Sum_probs=34.4
Q ss_pred cCCCCEEEEEEEcCCCCCCCCCCCEEEEEEEE-----EecCCcEE-e----c-cccEEEEeCCC
Q psy18101 35 LGSGHIKKKITKHGEPDTRPQRGDLCVISGFG-----KLEDDTLV-E----T-FDNLEICVGDL 87 (126)
Q Consensus 35 ~~~g~v~k~il~~G~g~~~p~~gd~V~v~y~~-----~~~dG~v~-d----~-~~p~~f~lG~~ 87 (126)
+..|.....+|-.|+- .....++.+.++|.. ++..|+.+ + . ..||.+..|.+
T Consensus 113 T~~Ge~r~v~L~DGS~-v~Ln~~S~l~~~~~~~~R~v~L~~Gea~F~Va~d~~~rPF~V~t~~~ 175 (319)
T PRK09774 113 TAKGEVSRQRLEDGSL-LTLNTQSAVDVRFDAHQRTVRLWYGEIAITTAKDALQRPFRVLTRQG 175 (319)
T ss_pred cCCCceEEEEcCCCCE-EEEcCCCeEEEeecCCeeEEEEeccEEEEEEcCCCCCCCEEEEeCCc
Confidence 5667777777877766 567778888888853 34578765 2 2 36766665543
No 41
>cd04454 S1_Rrp4_like S1_Rrp4_like: Rrp4-like, S1-like RNA-binding domain. S1-like RNA-binding domains are found in a wide variety of RNA-associated proteins. Rrp4 protein, and Rrp40 and Csl4 proteins, also represented in this group, are subunits of the exosome complex. The exosome plays a central role in 3' to 5' RNA processing and degradation in eukarytes and archaea. Its functions include the removal of incorrectly processed RNA and the maintenance of proper levels of mRNA, rRNA and a number of small RNA species. In Saccharomyces cerevisiae, the exosome includes nine core components, six of which are homologous to bacterial RNase PH. These form a hexameric ring structure. The other three subunits (RrP4, Rrp40, and Csl4) contain an S1 RNA binding domain and are part of the "S1 pore structure".
Probab=25.51 E-value=1.6e+02 Score=17.62 Aligned_cols=59 Identities=10% Similarity=0.003 Sum_probs=31.8
Q ss_pred CCCCCCEEEEEEEEEecCCcEEeccccEEEEeCCCCcHHH-HHHHhcCcCCCcEEEEEEc
Q psy18101 53 RPQRGDLCVISGFGKLEDDTLVETFDNLEICVGDLELVHG-MDYVLPLMEMGEECQIEIT 111 (126)
Q Consensus 53 ~p~~gd~V~v~y~~~~~dG~v~d~~~p~~f~lG~~~li~g-le~al~~M~~Ge~~~~~ip 111 (126)
.|+.||.|.-.-.....++-.++-...+...+-..++... ....-..+++|+...+.+-
T Consensus 3 ~p~~GdiV~G~V~~v~~~~~~V~i~~~~~g~l~~~~~~~~~~~~~~~~~~~GD~i~~~V~ 62 (82)
T cd04454 3 LPDVGDIVIGIVTEVNSRFWKVDILSRGTARLEDSSATEKDKKEIRKSLQPGDLILAKVI 62 (82)
T ss_pred CCCCCCEEEEEEEEEcCCEEEEEeCCCceEEeechhccCcchHHHHhcCCCCCEEEEEEE
Confidence 4788888877766554444444432233333332333222 2222344799999888774
No 42
>PRK04405 prsA peptidylprolyl isomerase; Provisional
Probab=25.12 E-value=41 Score=26.03 Aligned_cols=25 Identities=16% Similarity=0.013 Sum_probs=20.3
Q ss_pred EEeCCCCcHHHHHHHhcCcCCCcEE
Q psy18101 82 ICVGDLELVHGMDYVLPLMEMGEEC 106 (126)
Q Consensus 82 f~lG~~~li~gle~al~~M~~Ge~~ 106 (126)
|..+.+++.+.|+.++..|++|+..
T Consensus 194 ~~~~~~~l~~~f~~a~~~L~~Geis 218 (298)
T PRK04405 194 FDSTDTTLDSTFKTAAFKLKNGEYT 218 (298)
T ss_pred cccCCCCCCHHHHHHHHcCCCCCcc
Confidence 3334567899999999999999974
No 43
>PLN02316 synthase/transferase
Probab=24.81 E-value=1e+02 Score=28.44 Aligned_cols=62 Identities=15% Similarity=0.104 Sum_probs=36.4
Q ss_pred CCCCCCCEEEEEEEEEecCCcEEeccccEEEEeCCCCcHHHHHHHhcCcC----CCcEEEEEEc-CCCCc
Q psy18101 52 TRPQRGDLCVISGFGKLEDDTLVETFDNLEICVGDLELVHGMDYVLPLME----MGEECQIEIT-ARFGY 116 (126)
Q Consensus 52 ~~p~~gd~V~v~y~~~~~dG~v~d~~~p~~f~lG~~~li~gle~al~~M~----~Ge~~~~~ip-~~~ay 116 (126)
..++.|+.|+|.|.- +.+.+.....+.+..|-+++..+.......|+ -|+.+...|. |..||
T Consensus 323 ~~~~aG~~v~lyYN~---~~~~L~~~~~v~i~gg~N~W~~~~~~~~~~~~~~~~~g~ww~a~v~vP~~A~ 389 (1036)
T PLN02316 323 SEFKAGDTVKLYYNR---SSGPLAHSTEIWIHGGYNNWIDGLSIVEKLVKSEEKDGDWWYAEVVVPERAL 389 (1036)
T ss_pred CCcCCCCEEEEEECC---CCCCCCCCCcEEEEEeEcCCCCCCcccceeecccCCCCCEEEEEEecCCCce
Confidence 468899999999973 33344334566667666666655543333333 5666555442 44455
No 44
>PRK10354 RNA chaperone/anti-terminator; Provisional
Probab=23.01 E-value=1.3e+02 Score=17.88 Aligned_cols=39 Identities=10% Similarity=0.078 Sum_probs=20.3
Q ss_pred cCCCCCCCCCC-CEEEEEEEEEecCC-cEEeccccEEEEeC
Q psy18101 47 HGEPDTRPQRG-DLCVISGFGKLEDD-TLVETFDNLEICVG 85 (126)
Q Consensus 47 ~G~g~~~p~~g-d~V~v~y~~~~~dG-~v~d~~~p~~f~lG 85 (126)
+|-|-..|..| .-|.+|++....+| ..+..++.+.|.+.
T Consensus 16 kGfGFI~~~~g~~dvfvH~s~l~~~g~~~l~~G~~V~f~~~ 56 (70)
T PRK10354 16 KGFGFITPDDGSKDVFVHFSAIQNDGYKSLDEGQKVSFTIE 56 (70)
T ss_pred CCcEEEecCCCCccEEEEEeeccccCCCCCCCCCEEEEEEE
Confidence 45554444444 57777777643333 33344445555543
No 45
>PF05688 DUF824: Salmonella repeat of unknown function (DUF824); InterPro: IPR008542 This family consists of a series of repeated sequences (of around 180 residues) which are found in Salmonella typhimurium, Salmonella typhi and Escherichia coli. These repeats are almost always found with this entry. The repeats are associated with RatA and RatB, the coding sequences of which are found in the pathogeneicity island of Salmonella. The sequences may be determinants of pathogenicity [, ].
Probab=22.83 E-value=1.6e+02 Score=16.57 Aligned_cols=35 Identities=14% Similarity=0.138 Sum_probs=25.7
Q ss_pred CCCCCCCEEEEEEEEEecCCcEEeccccEEEEeCCC
Q psy18101 52 TRPQRGDLCVISGFGKLEDDTLVETFDNLEICVGDL 87 (126)
Q Consensus 52 ~~p~~gd~V~v~y~~~~~dG~v~d~~~p~~f~lG~~ 87 (126)
.+.+.|+.+.+..+.+..+|..+. +.+|.+..|.+
T Consensus 7 akaK~Ge~I~ltVt~kda~G~pv~-n~~f~l~r~~~ 41 (47)
T PF05688_consen 7 AKAKVGETIPLTVTVKDANGNPVP-NAPFTLTRGDA 41 (47)
T ss_pred hheecCCeEEEEEEEECCCCCCcC-CceEEEEecCc
Confidence 467889999999998888886553 34677776654
No 46
>COG0425 SirA Predicted redox protein, regulator of disulfide bond formation [Posttranslational modification, protein turnover, chaperones]
Probab=22.50 E-value=1.1e+02 Score=18.76 Aligned_cols=22 Identities=14% Similarity=0.108 Sum_probs=18.5
Q ss_pred HHHHHhcCcCCCcEEEEEEcCC
Q psy18101 92 GMDYVLPLMEMGEECQIEITAR 113 (126)
Q Consensus 92 gle~al~~M~~Ge~~~~~ip~~ 113 (126)
-...+|..|+.||..++.+...
T Consensus 21 ~~kk~l~~m~~Ge~LeV~~ddp 42 (78)
T COG0425 21 ETKKALAKLKPGEILEVIADDP 42 (78)
T ss_pred HHHHHHHcCCCCCEEEEEecCc
Confidence 3668999999999999988654
No 47
>TIGR03773 anch_rpt_wall putative ABC transporter-associated repeat protein. Members of this protein family occur in genomes that contain a three-gene ABC transporter operon associated with the presence of domain TIGR03769. That domain occurs as a single-copy insert in the substrate-binding protein, and occurs in two or more copies in members of this protein family. Members of this family typically are encoded adjacent to the said transporter operon and may serve as a substrate receptor.
Probab=22.22 E-value=1.7e+02 Score=24.74 Aligned_cols=30 Identities=13% Similarity=0.092 Sum_probs=23.5
Q ss_pred CEEEEEEEEEecCCcEEeccccEEEEeCCC
Q psy18101 58 DLCVISGFGKLEDDTLVETFDNLEICVGDL 87 (126)
Q Consensus 58 d~V~v~y~~~~~dG~v~d~~~p~~f~lG~~ 87 (126)
-.++++|++.+.+|+.+.....++|.+|++
T Consensus 413 Y~l~~~~sa~~~~G~~vS~~~tltfaVG~~ 442 (513)
T TIGR03773 413 YKLQVTQSATTTNGKKASDTTTLTFAVGDN 442 (513)
T ss_pred EEEEEEEEEEeCCCceecccEEEEEEeCCC
Confidence 467777777778888776667899999974
No 48
>PRK05892 nucleoside diphosphate kinase regulator; Provisional
Probab=22.17 E-value=99 Score=21.74 Aligned_cols=24 Identities=8% Similarity=0.047 Sum_probs=20.5
Q ss_pred HHHHHHHhcCcCCCcEEEEEEcCC
Q psy18101 90 VHGMDYVLPLMEMGEECQIEITAR 113 (126)
Q Consensus 90 i~gle~al~~M~~Ge~~~~~ip~~ 113 (126)
..-+-.||.|.++||.+.+..|..
T Consensus 122 ~SPlG~ALlGk~vGD~v~v~~p~g 145 (158)
T PRK05892 122 DSPLGQALAGHQAGDTVTYSTPQG 145 (158)
T ss_pred CCHHHHHHhCCCCCCEEEEEcCCC
Confidence 456889999999999999988764
No 49
>cd03420 SirA_RHOD_Pry_redox SirA_RHOD_Pry_redox. SirA-like domain located within a multidomain protein of unknown function. Other domains include RHOD (rhodanese homology domain), and Pry_redox (pyridine nucleotide-disulphide oxidoreductase) as well as a C-terminal domain that corresponds to COG2210. This fold is referred to as a two-layered alpha/beta sandwich, structurally similar to that of translation initiation factor 3.
Probab=22.09 E-value=1.1e+02 Score=18.01 Aligned_cols=20 Identities=10% Similarity=0.295 Sum_probs=17.2
Q ss_pred HHHHhcCcCCCcEEEEEEcC
Q psy18101 93 MDYVLPLMEMGEECQIEITA 112 (126)
Q Consensus 93 le~al~~M~~Ge~~~~~ip~ 112 (126)
...+|..|+.|+..++.+.-
T Consensus 16 ~kkal~~l~~G~~l~V~~d~ 35 (69)
T cd03420 16 LKKEIDKLQDGEQLEVKASD 35 (69)
T ss_pred HHHHHHcCCCCCEEEEEECC
Confidence 67899999999998888764
No 50
>COG4013 Uncharacterized protein conserved in archaea [Function unknown]
Probab=22.07 E-value=2.2e+02 Score=18.24 Aligned_cols=39 Identities=13% Similarity=0.022 Sum_probs=23.7
Q ss_pred CCCCCCEEEEEEEEEecCCcEEecc-ccEEEEeCCCCcHHH
Q psy18101 53 RPQRGDLCVISGFGKLEDDTLVETF-DNLEICVGDLELVHG 92 (126)
Q Consensus 53 ~p~~gd~V~v~y~~~~~dG~v~d~~-~p~~f~lG~~~li~g 92 (126)
.+..||+|.+.|--...-|+++.-+ .-+++.+- +.+++|
T Consensus 20 eV~~gd~vel~~grVhIpG~vv~~n~g~l~l~~e-sdmi~G 59 (91)
T COG4013 20 EVDVGDYVELYFGRVHIPGRVVHYNDGLLRLVHE-SDMIYG 59 (91)
T ss_pred cCCCCCEEEEEEEEEEeccEEEEeeccEEEEEEe-ccccCc
Confidence 4678999999997555677776432 23444443 234444
No 51
>PRK14998 cold shock-like protein CspD; Provisional
Probab=22.03 E-value=1.7e+02 Score=17.69 Aligned_cols=40 Identities=13% Similarity=-0.018 Sum_probs=21.1
Q ss_pred EcCCCCCCCCC-CCEEEEEEEEEecCC-cEEeccccEEEEeC
Q psy18101 46 KHGEPDTRPQR-GDLCVISGFGKLEDD-TLVETFDNLEICVG 85 (126)
Q Consensus 46 ~~G~g~~~p~~-gd~V~v~y~~~~~dG-~v~d~~~p~~f~lG 85 (126)
.+|-|-..|.. +.-|.+|++....+| ..+..++.+.|.+.
T Consensus 12 ~kGfGFI~~~~g~~dVFvH~s~l~~~g~~~l~~G~~V~f~~~ 53 (73)
T PRK14998 12 AKGFGFICPEGGGEDIFAHYSTIQMDGYRTLKAGQSVRFDVH 53 (73)
T ss_pred CCceEEEecCCCCccEEEEeeeecccCCCCCCCCCEEEEEEE
Confidence 35555444444 357777777643344 33444455555553
No 52
>COG0024 Map Methionine aminopeptidase [Translation, ribosomal structure and biogenesis]
Probab=21.70 E-value=3.7e+02 Score=20.55 Aligned_cols=51 Identities=18% Similarity=0.251 Sum_probs=35.3
Q ss_pred CCCCCCCEEEEEEEEEecCCcEEeccccEEEEeCCC------CcH----HHHHHHhcCcCCCcE
Q psy18101 52 TRPQRGDLCVISGFGKLEDDTLVETFDNLEICVGDL------ELV----HGMDYVLPLMEMGEE 105 (126)
Q Consensus 52 ~~p~~gd~V~v~y~~~~~dG~v~d~~~p~~f~lG~~------~li----~gle~al~~M~~Ge~ 105 (126)
...+.||.|.|.+... .||-.-|+. .+|.+|.. +|+ .+|..++..+++|-+
T Consensus 85 ~vlk~GDiv~IDvg~~-~dG~~~Dsa--~T~~vg~~~~~~~~~L~~~t~eal~~~I~~vkpG~~ 145 (255)
T COG0024 85 KVLKEGDIVKIDVGAH-IDGYIGDTA--ITFVVGEVSDEDAKRLLEATKEALYAGIEAVKPGAR 145 (255)
T ss_pred cccCCCCEEEEEEEEE-ECCeeeeEE--EEEECCCCChHHHHHHHHHHHHHHHHHHHhccCCCC
Confidence 4678899999999874 488666654 66778841 133 456777777777754
No 53
>cd01088 MetAP2 Methionine Aminopeptidase 2. E.C. 3.4.11.18. Also known as methionyl aminopeptidase and peptidase M. Catalyzes release of N-terminal amino acids, preferentially methionine, from peptides and arylamides.
Probab=21.54 E-value=3e+02 Score=21.05 Aligned_cols=52 Identities=8% Similarity=0.028 Sum_probs=34.1
Q ss_pred CCCCCCCEEEEEEEEEecCCcEEeccccEEEEeCCC------CcHHHHHHHhcCcCCCcEE
Q psy18101 52 TRPQRGDLCVISGFGKLEDDTLVETFDNLEICVGDL------ELVHGMDYVLPLMEMGEEC 106 (126)
Q Consensus 52 ~~p~~gd~V~v~y~~~~~dG~v~d~~~p~~f~lG~~------~li~gle~al~~M~~Ge~~ 106 (126)
...+.||.|.+..-+. .||-..|.. .+|.+|.. -...+++.++..|++|-+.
T Consensus 69 ~~l~~GDvV~iD~G~~-~dGY~sD~a--rT~~vg~~~~~l~ea~~~A~~~ai~~ikPG~~~ 126 (291)
T cd01088 69 TVLKEGDVVKLDFGAH-VDGYIADSA--FTVDFDPKYDDLLEAAKEALNAAIKEAGPDVRL 126 (291)
T ss_pred cccCCCCEEEEEEEEE-ECCEEEEEE--EEEecChhHHHHHHHHHHHHHHHHHHhcCCCcH
Confidence 4678999999988664 377554433 44556642 1346677788888888653
No 54
>TIGR00501 met_pdase_II methionine aminopeptidase, type II. Methionine aminopeptidase (map) is a cobalt-binding enzyme. Bacterial and organellar examples (type I) differ from eukaroytic and archaeal (type II) examples in lacking a region of approximately 60 amino acids between the 4th and 5th cobalt-binding ligands. The role of this protein in general is to produce the mature amino end of cytosolic proteins by removing the N-terminal methionine. This model describes type II, among which the eukaryotic members typically have an N-terminal extension not present in archaeal members. It can act cotranslationally. The enzyme from rat has been shown to associate with translation initiation factor 2 (IF-2) and may have a role in translational regulation.
Probab=21.31 E-value=3.4e+02 Score=20.86 Aligned_cols=51 Identities=18% Similarity=0.224 Sum_probs=33.3
Q ss_pred CCCCCCCEEEEEEEEEecCCcEEeccccEEEEeCCC--Cc----HHHHHHHhcCcCCCcE
Q psy18101 52 TRPQRGDLCVISGFGKLEDDTLVETFDNLEICVGDL--EL----VHGMDYVLPLMEMGEE 105 (126)
Q Consensus 52 ~~p~~gd~V~v~y~~~~~dG~v~d~~~p~~f~lG~~--~l----i~gle~al~~M~~Ge~ 105 (126)
...+.||.|.+.+-+. .||-..|.. .+|.+|.. ++ ..+++.++..|++|-+
T Consensus 73 ~~l~~GDvV~iD~G~~-~dGY~aD~a--rT~~vG~~~~~l~~a~~~A~~aai~~~kPGv~ 129 (295)
T TIGR00501 73 TVFKDGDVVKLDLGAH-VDGYIADTA--ITVDLGDQYDNLVKAAKDALYTAIKEIRAGVR 129 (295)
T ss_pred ccCCCCCEEEEEEeEE-ECCEEEEEE--EEEEeCcHHHHHHHHHHHHHHHHHHHhcCCCC
Confidence 4678999999998664 477655533 45566753 22 3556667777777754
No 55
>PRK10943 cold shock-like protein CspC; Provisional
Probab=20.97 E-value=1e+02 Score=18.38 Aligned_cols=39 Identities=13% Similarity=0.049 Sum_probs=18.8
Q ss_pred cCCCCCCCCCC-CEEEEEEEEEecCC-cEEeccccEEEEeC
Q psy18101 47 HGEPDTRPQRG-DLCVISGFGKLEDD-TLVETFDNLEICVG 85 (126)
Q Consensus 47 ~G~g~~~p~~g-d~V~v~y~~~~~dG-~v~d~~~p~~f~lG 85 (126)
+|-|-..|..| .-|.+|++....+| ..+..++.+.|.+.
T Consensus 15 kGfGFI~~~~g~~dvFvH~s~l~~~g~~~l~~G~~V~f~~~ 55 (69)
T PRK10943 15 KGFGFITPADGSKDVFVHFSAIQGNGFKTLAEGQNVEFEIQ 55 (69)
T ss_pred CCcEEEecCCCCeeEEEEhhHccccCCCCCCCCCEEEEEEE
Confidence 44454444443 46777776633333 23333444555443
No 56
>cd03422 YedF YedF is a bacterial SirA-like protein of unknown function. SirA (also known as UvrY, and YhhP) belongs to a family of a two-component response regulators that controls secondary metabolism and virulence. The other member of this two-component system is a sensor kinase called BarA which phosphorylates SirA. A variety of microorganisms have similar proteins, all of which contain a common CPxP sequence motif in the N-terminal region. YhhP is suggested to be important for normal cell division and growth in rich nutrient medium. Moreover, despite a low primary sequence similarity, the YccP structure closely resembles the non-homologous C-terminal RNA-binding domain of E. coli translation initiation factor IF3. The signature CPxP motif serves to stabilize the N-terminal helix as part of the N-capping box and might be important in mRNA-binding.
Probab=20.70 E-value=1.2e+02 Score=17.86 Aligned_cols=20 Identities=20% Similarity=0.180 Sum_probs=16.9
Q ss_pred HHHHhcCcCCCcEEEEEEcC
Q psy18101 93 MDYVLPLMEMGEECQIEITA 112 (126)
Q Consensus 93 le~al~~M~~Ge~~~~~ip~ 112 (126)
..++|..|..|+...+.+.-
T Consensus 16 ~kkal~~l~~G~~l~V~~d~ 35 (69)
T cd03422 16 TLEALPSLKPGEILEVISDC 35 (69)
T ss_pred HHHHHHcCCCCCEEEEEecC
Confidence 56889999999999988764
No 57
>PRK09937 stationary phase/starvation inducible regulatory protein CspD; Provisional
Probab=20.52 E-value=1.7e+02 Score=17.77 Aligned_cols=39 Identities=13% Similarity=-0.004 Sum_probs=19.6
Q ss_pred cCCCCCCCCC-CCEEEEEEEEEecCC-cEEeccccEEEEeC
Q psy18101 47 HGEPDTRPQR-GDLCVISGFGKLEDD-TLVETFDNLEICVG 85 (126)
Q Consensus 47 ~G~g~~~p~~-gd~V~v~y~~~~~dG-~v~d~~~p~~f~lG 85 (126)
+|-|-..|.. +.-|.+|++....+| ..+..++.+.|.+.
T Consensus 13 KGfGFI~~~~gg~dVFvH~s~i~~~g~~~l~~G~~V~f~~~ 53 (74)
T PRK09937 13 KGFGFICPEGGGEDIFAHYSTIQMDGYRTLKAGQSVQFDVH 53 (74)
T ss_pred CCeEEEeeCCCCccEEEEEeeccccCCCCCCCCCEEEEEEE
Confidence 4445433433 366777777643344 33444445555543
No 58
>PF04014 Antitoxin-MazE: Antidote-toxin recognition MazE; InterPro: IPR007159 This domain is found in AbrB from Bacillus subtilis. The product of the abrB gene is an ambiactive repressor and activator of the transcription of genes expressed during the transition state between vegetative growth and the onset of stationary phase and sporulation []. AbrB is thought to interact directly with the transcription initiation regions of genes under its control []. AbrB contains a helix-turn-helix structure, but this domain ends before the helix-turn-helix begins []. The product of the B. subtilis gene spoVT is another member of this family and is also a transcriptional regulator []. DNA-binding activity in this AbrB homologue requires hexamerisation []. Another family member has been isolated from the Sulfolobus solfataricus and has been identified as a homologue of bacterial repressor-like proteins. The Escherichia coli family member SohA or Prl1F appears to be bifunctional and is able to regulate its own expression as well as relieve the export block imposed by high-level synthesis of beta-galactosidase hybrid proteins [].; PDB: 2L66_A 2GLW_A 3TND_D 2W1T_B 2RO5_B 2FY9_A 2RO3_B 1UB4_C 3ZVK_G 1YFB_B ....
Probab=20.31 E-value=1.6e+02 Score=15.84 Aligned_cols=24 Identities=21% Similarity=0.351 Sum_probs=18.0
Q ss_pred cHHHHHHHhcCcCCCcEEEEEEcCC
Q psy18101 89 LVHGMDYVLPLMEMGEECQIEITAR 113 (126)
Q Consensus 89 li~gle~al~~M~~Ge~~~~~ip~~ 113 (126)
++..|.+.+ ++++|+.+.+.+...
T Consensus 11 iPk~~~~~l-~l~~Gd~v~i~~~~~ 34 (47)
T PF04014_consen 11 IPKEIREKL-GLKPGDEVEIEVEGD 34 (47)
T ss_dssp E-HHHHHHT-TSSTTTEEEEEEETT
T ss_pred CCHHHHHHc-CCCCCCEEEEEEeCC
Confidence 566777766 899999999887653
No 59
>PRK09507 cspE cold shock protein CspE; Reviewed
Probab=20.04 E-value=1.9e+02 Score=17.21 Aligned_cols=40 Identities=10% Similarity=0.040 Sum_probs=20.4
Q ss_pred EcCCCCCCCCCC-CEEEEEEEEEecCC-cEEeccccEEEEeC
Q psy18101 46 KHGEPDTRPQRG-DLCVISGFGKLEDD-TLVETFDNLEICVG 85 (126)
Q Consensus 46 ~~G~g~~~p~~g-d~V~v~y~~~~~dG-~v~d~~~p~~f~lG 85 (126)
.+|-|-..|..| .-|.+|++....+| ..+..++.+.|.+.
T Consensus 14 ~kGyGFI~~~~g~~dvfvH~s~l~~~g~~~l~~G~~V~f~~~ 55 (69)
T PRK09507 14 SKGFGFITPEDGSKDVFVHFSAIQTNGFKTLAEGQRVEFEIT 55 (69)
T ss_pred CCCcEEEecCCCCeeEEEEeecccccCCCCCCCCCEEEEEEE
Confidence 355554444443 46777777643333 33344445555544
Done!