Query 034638
Match_columns 88
No_of_seqs 149 out of 1064
Neff 8.8
Searched_HMMs 46136
Date Fri Mar 29 04:56:13 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/034638.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/034638hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG0544 FKBP-type peptidyl-pro 99.9 9.1E-25 2E-29 123.4 8.6 81 1-85 1-82 (108)
2 COG0545 FkpA FKBP-type peptidy 99.9 1.7E-24 3.8E-29 137.2 8.4 78 2-85 102-179 (205)
3 PRK11570 peptidyl-prolyl cis-t 99.9 1.8E-21 3.8E-26 125.1 9.5 79 1-85 102-180 (206)
4 KOG0549 FKBP-type peptidyl-pro 99.9 2.4E-21 5.2E-26 120.9 9.2 79 3-85 70-150 (188)
5 TIGR03516 ppisom_GldI peptidyl 99.8 1.7E-20 3.7E-25 118.1 9.1 79 2-85 70-150 (177)
6 KOG0552 FKBP-type peptidyl-pro 99.8 1.5E-20 3.4E-25 121.3 8.7 80 2-85 121-201 (226)
7 PRK10902 FKBP-type peptidyl-pr 99.8 7.7E-20 1.7E-24 121.4 9.9 79 1-85 146-224 (269)
8 PF00254 FKBP_C: FKBP-type pep 99.8 8.2E-19 1.8E-23 99.9 7.7 67 15-85 4-70 (94)
9 PRK15095 FKBP-type peptidyl-pr 99.7 8.6E-18 1.9E-22 104.0 7.8 67 15-85 4-70 (156)
10 COG1047 SlpA FKBP-type peptidy 99.7 5.8E-16 1.2E-20 96.7 8.1 67 15-85 2-68 (174)
11 PRK10737 FKBP-type peptidyl-pr 99.6 1.1E-15 2.4E-20 97.5 7.6 65 16-85 3-67 (196)
12 KOG0543 FKBP-type peptidyl-pro 99.3 9.8E-12 2.1E-16 85.9 8.9 76 2-85 85-163 (397)
13 TIGR00115 tig trigger factor. 99.0 1.4E-09 3.1E-14 75.8 7.9 62 14-82 145-206 (408)
14 COG0544 Tig FKBP-type peptidyl 99.0 1.2E-09 2.7E-14 77.1 7.3 62 16-84 158-221 (441)
15 PRK01490 tig trigger factor; P 99.0 3.8E-09 8.2E-14 74.3 8.4 61 14-81 156-216 (435)
16 KOG0543 FKBP-type peptidyl-pro 98.9 1.7E-09 3.6E-14 75.0 5.4 63 9-76 1-64 (397)
17 KOG0545 Aryl-hydrocarbon recep 98.6 1.8E-08 4E-13 66.7 1.2 79 2-82 11-91 (329)
18 KOG0549 FKBP-type peptidyl-pro 97.5 3.2E-05 7E-10 48.9 1.0 34 52-85 1-34 (188)
19 PF01272 GreA_GreB: Transcript 76.4 3.7 7.9E-05 22.2 2.6 24 60-83 43-66 (77)
20 PRK00226 greA transcription el 76.2 5.9 0.00013 24.4 3.8 26 58-83 121-146 (157)
21 PF09122 DUF1930: Domain of un 68.7 8.1 0.00018 20.5 2.6 23 61-83 35-57 (68)
22 PHA02122 hypothetical protein 62.8 20 0.00044 18.6 3.6 20 17-40 39-58 (65)
23 TIGR01462 greA transcription e 59.3 15 0.00032 22.5 3.1 26 58-83 116-141 (151)
24 PRK02268 hypothetical protein; 58.0 8.2 0.00018 23.7 1.7 26 58-83 24-49 (141)
25 PF00639 Rotamase: PPIC-type P 57.1 12 0.00026 20.7 2.2 26 54-79 57-82 (95)
26 PRK05753 nucleoside diphosphat 55.4 15 0.00033 22.2 2.6 25 59-83 91-115 (137)
27 TIGR03096 nitroso_cyanin nitro 54.2 48 0.001 20.2 5.9 26 2-27 45-76 (135)
28 TIGR01461 greB transcription e 53.2 20 0.00044 22.1 2.9 25 59-83 119-143 (156)
29 COG0024 Map Methionine aminope 52.7 67 0.0015 21.7 5.5 51 14-75 85-145 (255)
30 cd03420 SirA_RHOD_Pry_redox Si 51.6 28 0.00061 18.2 3.0 19 63-81 16-34 (69)
31 PRK05892 nucleoside diphosphat 49.5 24 0.00052 21.9 2.8 24 60-83 122-145 (158)
32 PF11012 DUF2850: Protein of u 46.5 40 0.00087 18.6 3.1 43 13-58 10-52 (79)
33 PRK01885 greB transcription el 46.2 29 0.00063 21.5 2.9 24 60-83 122-145 (157)
34 PF03894 XFP: D-xylulose 5-pho 45.9 22 0.00048 22.7 2.3 24 59-83 142-165 (179)
35 PRK00299 sulfur transfer prote 45.7 37 0.00081 18.4 3.0 25 57-81 16-44 (81)
36 COG0425 SirA Predicted redox p 44.4 35 0.00077 18.6 2.7 20 63-82 22-41 (78)
37 PF01878 EVE: EVE domain; Int 44.2 21 0.00045 21.3 2.0 17 66-82 36-52 (143)
38 PRK00809 hypothetical protein; 43.4 28 0.0006 21.3 2.4 24 59-82 24-47 (144)
39 PF07076 DUF1344: Protein of u 41.8 54 0.0012 17.2 3.2 31 49-81 16-49 (61)
40 PF04014 Antitoxin-MazE: Antid 40.7 41 0.00089 16.1 2.4 23 59-82 11-33 (47)
41 TIGR00501 met_pdase_II methion 40.6 1.1E+02 0.0023 20.9 5.1 51 14-75 73-129 (295)
42 cd01088 MetAP2 Methionine Amin 40.5 95 0.0021 21.0 4.9 51 14-75 69-125 (291)
43 TIGR00495 crvDNA_42K 42K curve 39.7 1.2E+02 0.0026 21.7 5.4 51 14-75 99-163 (389)
44 cd03422 YedF YedF is a bacteri 39.4 41 0.00089 17.6 2.4 19 63-81 16-34 (69)
45 PRK11536 6-N-hydroxylaminopuri 39.1 33 0.00071 22.7 2.4 23 2-27 143-165 (223)
46 PF04225 OapA: Opacity-associa 38.4 33 0.00072 18.9 2.1 20 64-83 37-56 (85)
47 TIGR02925 cis_trans_EpsD pepti 37.4 32 0.00069 22.1 2.2 21 56-76 189-209 (232)
48 PTZ00053 methionine aminopepti 37.0 76 0.0017 23.4 4.1 51 14-75 232-288 (470)
49 PRK08671 methionine aminopepti 37.0 1.3E+02 0.0027 20.4 5.0 51 14-75 70-126 (291)
50 cd01090 Creatinase Creatine am 35.7 1.2E+02 0.0027 19.6 5.0 51 14-75 75-134 (228)
51 COG1062 AdhC Zn-dependent alco 35.6 85 0.0018 22.4 4.0 37 48-84 53-91 (366)
52 TIGR00496 frr ribosome recycli 34.9 33 0.00072 21.7 1.9 64 16-82 25-95 (176)
53 COG0048 RpsL Ribosomal protein 34.5 83 0.0018 19.0 3.4 24 2-25 66-89 (129)
54 PRK00083 frr ribosome recyclin 33.9 35 0.00075 21.8 1.8 64 16-82 34-104 (185)
55 PF11604 CusF_Ec: Copper bindi 33.6 39 0.00084 17.9 1.8 16 66-81 39-54 (70)
56 cd00520 RRF Ribosome recycling 31.9 33 0.00072 21.7 1.5 64 16-82 30-100 (179)
57 COG2139 RPL21A Ribosomal prote 31.8 61 0.0013 18.7 2.4 22 63-84 26-47 (98)
58 PRK15441 peptidyl-prolyl cis-t 31.1 39 0.00084 18.7 1.6 22 56-77 55-76 (93)
59 TIGR03595 Obg_CgtA_exten Obg f 31.0 57 0.0012 17.3 2.1 18 61-78 43-62 (69)
60 PF00970 FAD_binding_6: Oxidor 30.7 96 0.0021 16.8 8.3 59 16-82 30-94 (99)
61 PF01206 TusA: Sulfurtransfera 30.4 62 0.0013 16.6 2.2 20 63-82 17-36 (70)
62 TIGR00686 phnA alkylphosphonat 30.0 67 0.0015 18.9 2.4 25 7-31 42-66 (109)
63 cd03423 SirA SirA (also known 29.6 82 0.0018 16.3 2.6 19 63-81 16-34 (69)
64 PRK12450 foldase protein PrsA; 29.5 34 0.00074 23.4 1.4 27 52-78 195-221 (309)
65 PF03459 TOBE: TOBE domain; I 29.3 46 0.001 16.7 1.6 35 49-83 22-60 (64)
66 PRK11018 hypothetical protein; 29.0 73 0.0016 17.1 2.4 19 63-81 25-43 (78)
67 COG2258 Uncharacterized protei 27.9 62 0.0013 21.3 2.3 25 2-29 140-164 (210)
68 TIGR02993 ectoine_eutD ectoine 27.7 1.9E+02 0.0042 20.3 4.9 50 15-75 237-295 (391)
69 PF03831 PhnA: PhnA protein; 27.7 29 0.00063 17.9 0.6 22 9-30 3-24 (56)
70 KOG1546 Metacaspase involved i 26.9 2.4E+02 0.0052 20.1 5.3 62 16-81 135-202 (362)
71 PRK04980 hypothetical protein; 26.8 1.2E+02 0.0026 17.6 3.1 74 2-81 18-98 (102)
72 PF13616 Rotamase_3: PPIC-type 26.7 34 0.00074 19.7 0.9 20 56-75 79-98 (117)
73 cd01089 PA2G4-like Related to 26.1 1.9E+02 0.004 18.6 6.1 50 15-75 82-145 (228)
74 cd00291 SirA_YedF_YeeD SirA, Y 25.1 1.1E+02 0.0023 15.5 3.3 20 63-82 16-35 (69)
75 PRK10220 hypothetical protein; 25.1 91 0.002 18.4 2.4 25 7-31 43-67 (111)
76 TIGR00638 Mop molybdenum-pteri 25.1 87 0.0019 15.7 2.2 16 68-83 47-62 (69)
77 PF13069 DUF3933: Protein of u 24.7 70 0.0015 15.8 1.6 19 62-80 26-45 (53)
78 PF14444 S1-like: S1-like 24.7 82 0.0018 16.4 2.0 15 12-26 30-44 (58)
79 PRK04405 prsA peptidylprolyl i 24.5 54 0.0012 22.4 1.6 25 52-76 194-218 (298)
80 KOG2738 Putative methionine am 24.2 1.4E+02 0.003 21.1 3.5 52 14-76 195-255 (369)
81 PF15032 DUF4529: Protein of u 24.1 39 0.00085 24.1 0.9 18 48-70 57-74 (400)
82 COG3957 Phosphoketolase [Carbo 23.9 59 0.0013 25.5 1.8 25 58-83 542-566 (793)
83 COG0298 HypC Hydrogenase matur 23.9 1.5E+02 0.0031 16.6 3.1 12 15-26 38-49 (82)
84 PF09269 DUF1967: Domain of un 23.8 79 0.0017 16.7 1.9 18 61-78 43-62 (69)
85 COG0782 Uncharacterized conser 23.6 95 0.0021 19.1 2.5 24 58-81 114-137 (151)
86 PF08402 TOBE_2: TOBE domain; 22.7 42 0.00091 16.9 0.7 18 68-85 55-72 (75)
87 PF11195 DUF2829: Protein of u 22.4 29 0.00062 18.8 -0.0 14 63-76 3-16 (75)
88 COG1188 Ribosome-associated he 22.0 1E+02 0.0022 17.8 2.2 18 14-31 47-64 (100)
89 PRK05583 ribosomal protein L7A 22.0 57 0.0012 18.8 1.2 30 56-85 15-44 (104)
90 PF00018 SH3_1: SH3 domain; I 21.8 48 0.001 15.7 0.7 20 68-88 14-33 (48)
91 PRK10413 hydrogenase 2 accesso 21.6 1.6E+02 0.0035 16.3 3.6 11 16-26 43-53 (82)
92 COG0233 Frr Ribosome recycling 21.5 87 0.0019 20.3 2.0 64 16-82 36-106 (187)
93 TIGR00074 hypC_hupF hydrogenas 21.2 98 0.0021 16.9 1.9 13 15-27 35-47 (76)
94 PF14250 AbrB-like: AbrB-like 21.1 1.3E+02 0.0028 16.3 2.3 22 60-81 43-64 (71)
95 PRK04175 rpl7ae 50S ribosomal 20.9 64 0.0014 19.1 1.3 31 56-86 28-58 (122)
96 COG4922 Uncharacterized protei 20.9 1.2E+02 0.0025 18.3 2.3 44 16-67 71-114 (129)
97 COG2824 PhnA Uncharacterized Z 20.8 1E+02 0.0022 18.1 2.1 26 7-32 44-69 (112)
98 PRK07714 hypothetical protein; 20.7 54 0.0012 18.5 0.9 30 56-85 16-45 (100)
99 COG5569 Uncharacterized conser 20.2 1.2E+02 0.0027 17.6 2.2 27 2-28 70-96 (108)
100 PRK04306 50S ribosomal protein 20.1 1.5E+02 0.0033 17.0 2.7 23 61-83 26-48 (98)
101 PRK05261 putative phosphoketol 20.1 1.1E+02 0.0023 24.3 2.5 26 57-83 530-555 (785)
No 1
>KOG0544 consensus FKBP-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]
Probab=99.92 E-value=9.1e-25 Score=123.39 Aligned_cols=81 Identities=57% Similarity=1.006 Sum_probs=77.6
Q ss_pred CCeEEEEeccCCCCC-CCCCCEEEEEEEEEEeCCCceeeEeccCCCCCccEEEEeCCCCccccHHHHhcCCCCCcEEEEE
Q 034638 1 MGIEKQILTPGNGPK-PVAGQKVTVHCTGYGKNGDLSQKFWSTKDPGQQPFTFQIGKGSVIKGWDEGVMGMQVGEVARLR 79 (88)
Q Consensus 1 ~Gv~~~vl~~G~g~~-~~~gd~V~i~y~~~~~~gg~~~~~~~t~~~~~~p~~~~lG~~~~~~g~~~al~~m~~G~~~~~~ 79 (88)
||+.++++.+|+|.. |+.||.|++||++.+.|| +.||||.+++ +|+.|.+|.+++|.||++++..|.+|+++++.
T Consensus 1 mGv~~~~i~~Gdg~tfpK~Gqtvt~hYtg~L~dG---~kfDSs~dr~-kPfkf~IGkgeVIkGwdegv~qmsvGekakLt 76 (108)
T KOG0544|consen 1 MGVEKQVISPGDGRTFPKKGQTVTVHYTGTLQDG---KKFDSSRDRG-KPFKFKIGKGEVIKGWDEGVAQMSVGEKAKLT 76 (108)
T ss_pred CCceeEEeeCCCCcccCCCCCEEEEEEEeEecCC---cEeecccccC-CCeeEEecCcceeechhhcchhccccccceee
Confidence 899999999999966 999999999999999888 9999999976 69999999999999999999999999999999
Q ss_pred ECCCCC
Q 034638 80 TKPSSS 85 (88)
Q Consensus 80 ip~~~a 85 (88)
|+|++|
T Consensus 77 i~pd~a 82 (108)
T KOG0544|consen 77 ISPDYA 82 (108)
T ss_pred eccccc
Confidence 999876
No 2
>COG0545 FkpA FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]
Probab=99.91 E-value=1.7e-24 Score=137.16 Aligned_cols=78 Identities=44% Similarity=0.778 Sum_probs=75.0
Q ss_pred CeEEEEeccCCCCCCCCCCEEEEEEEEEEeCCCceeeEeccCCCCCccEEEEeCCCCccccHHHHhcCCCCCcEEEEEEC
Q 034638 2 GIEKQILTPGNGPKPVAGQKVTVHCTGYGKNGDLSQKFWSTKDPGQQPFTFQIGKGSVIKGWDEGVMGMQVGEVARLRTK 81 (88)
Q Consensus 2 Gv~~~vl~~G~g~~~~~gd~V~i~y~~~~~~gg~~~~~~~t~~~~~~p~~~~lG~~~~~~g~~~al~~m~~G~~~~~~ip 81 (88)
|++|++++.|+|..|+.+|.|.+||++++.|| ++||||++++ +|+.|.+| ++|+||.++|.+|++|++++++||
T Consensus 102 gl~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 102 GLQYKVLKAGDGAAPKKGDTVTVHYTGTLIDG---TVFDSSYDRG-QPAEFPLG--GVIPGWDEGLQGMKVGGKRKLTIP 175 (205)
T ss_pred CcEEEEEeccCCCCCCCCCEEEEEEEEecCCC---CccccccccC-CCceeecC--CeeehHHHHHhhCCCCceEEEEeC
Confidence 79999999999999999999999999999998 9999999987 59999996 999999999999999999999999
Q ss_pred CCCC
Q 034638 82 PSSS 85 (88)
Q Consensus 82 ~~~a 85 (88)
|++|
T Consensus 176 ~~la 179 (205)
T COG0545 176 PELA 179 (205)
T ss_pred chhc
Confidence 9987
No 3
>PRK11570 peptidyl-prolyl cis-trans isomerase; Provisional
Probab=99.87 E-value=1.8e-21 Score=125.07 Aligned_cols=79 Identities=33% Similarity=0.509 Sum_probs=73.5
Q ss_pred CCeEEEEeccCCCCCCCCCCEEEEEEEEEEeCCCceeeEeccCCCCCccEEEEeCCCCccccHHHHhcCCCCCcEEEEEE
Q 034638 1 MGIEKQILTPGNGPKPVAGQKVTVHCTGYGKNGDLSQKFWSTKDPGQQPFTFQIGKGSVIKGWDEGVMGMQVGEVARLRT 80 (88)
Q Consensus 1 ~Gv~~~vl~~G~g~~~~~gd~V~i~y~~~~~~gg~~~~~~~t~~~~~~p~~~~lG~~~~~~g~~~al~~m~~G~~~~~~i 80 (88)
.|++|+++++|+|..|+.+|.|.+||++++.|| ++|++|+.++ +|+.|.++ .+++||+++|.+|++|++++++|
T Consensus 102 sGl~y~vi~~G~G~~p~~~d~V~v~Y~g~l~dG---~vfdss~~~g-~P~~f~l~--~vipG~~eaL~~M~~G~k~~~~I 175 (206)
T PRK11570 102 SGLQFRVLTQGEGAIPARTDRVRVHYTGKLIDG---TVFDSSVARG-EPAEFPVN--GVIPGWIEALTLMPVGSKWELTI 175 (206)
T ss_pred CCcEEEEEeCCCCCCCCCCCEEEEEEEEEECCC---CEEEeccCCC-CCeEEEee--chhhHHHHHHcCCCCCCEEEEEE
Confidence 389999999999999999999999999999887 9999999865 59999994 79999999999999999999999
Q ss_pred CCCCC
Q 034638 81 KPSSS 85 (88)
Q Consensus 81 p~~~a 85 (88)
||++|
T Consensus 176 P~~lA 180 (206)
T PRK11570 176 PHELA 180 (206)
T ss_pred CHHHc
Confidence 99875
No 4
>KOG0549 consensus FKBP-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]
Probab=99.86 E-value=2.4e-21 Score=120.93 Aligned_cols=79 Identities=41% Similarity=0.707 Sum_probs=68.7
Q ss_pred eEEEEeccCC-C-CCCCCCCEEEEEEEEEEeCCCceeeEeccCCCCCccEEEEeCCCCccccHHHHhcCCCCCcEEEEEE
Q 034638 3 IEKQILTPGN-G-PKPVAGQKVTVHCTGYGKNGDLSQKFWSTKDPGQQPFTFQIGKGSVIKGWDEGVMGMQVGEVARLRT 80 (88)
Q Consensus 3 v~~~vl~~G~-g-~~~~~gd~V~i~y~~~~~~gg~~~~~~~t~~~~~~p~~~~lG~~~~~~g~~~al~~m~~G~~~~~~i 80 (88)
++..++++=. . .+.+.||.+.+||++.+.|| ++||||+.++ +|+.|++|.+++++||+.+|++|++||++++.|
T Consensus 70 l~I~v~~~p~~C~~kak~GD~l~~HY~g~leDG---t~fdSS~~rg-~P~~f~LG~gqVIkG~Dqgl~gMCvGEkRkl~I 145 (188)
T KOG0549|consen 70 LQIGVLKKPEECPEKAKKGDTLHVHYTGSLEDG---TKFDSSYSRG-APFTFTLGTGQVIKGWDQGLLGMCVGEKRKLII 145 (188)
T ss_pred eeEEEEECCccccccccCCCEEEEEEEEEecCC---CEEeeeccCC-CCEEEEeCCCceeccHhHHhhhhCcccceEEec
Confidence 3444444411 2 33899999999999999888 9999999977 599999999999999999999999999999999
Q ss_pred CCCCC
Q 034638 81 KPSSS 85 (88)
Q Consensus 81 p~~~a 85 (88)
||++|
T Consensus 146 Pp~Lg 150 (188)
T KOG0549|consen 146 PPHLG 150 (188)
T ss_pred Ccccc
Confidence 99987
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=99.84 E-value=1.7e-20 Score=118.13 Aligned_cols=79 Identities=22% Similarity=0.334 Sum_probs=72.0
Q ss_pred CeEEEEecc--CCCCCCCCCCEEEEEEEEEEeCCCceeeEeccCCCCCccEEEEeCCCCccccHHHHhcCCCCCcEEEEE
Q 034638 2 GIEKQILTP--GNGPKPVAGQKVTVHCTGYGKNGDLSQKFWSTKDPGQQPFTFQIGKGSVIKGWDEGVMGMQVGEVARLR 79 (88)
Q Consensus 2 Gv~~~vl~~--G~g~~~~~gd~V~i~y~~~~~~gg~~~~~~~t~~~~~~p~~~~lG~~~~~~g~~~al~~m~~G~~~~~~ 79 (88)
|++|+++.. |+|..|+.||.|.+||++++.|| ++|++++.. .|+.|.+|.+++++||+++|.+|++||+++|+
T Consensus 70 Gl~Y~v~~~~~g~g~~p~~gd~V~v~Y~~~~~dG---~v~~ss~~~--~P~~f~vg~~~vi~Gl~e~L~~Mk~Ge~~~~~ 144 (177)
T TIGR03516 70 GFWYYYNQKDTGEGTTPEFGDLVTFEYDIRALDG---DVIYSEEEL--GPQTYKVDQQDLFSGLRDGLKLMKEGETATFL 144 (177)
T ss_pred ccEEEEEEecCCCCCcCCCCCEEEEEEEEEeCCC---CEEEeCCCC--CCEEEEeCCcchhHHHHHHHcCCCCCCEEEEE
Confidence 788988865 66677999999999999999988 999999872 49999999999999999999999999999999
Q ss_pred ECCCCC
Q 034638 80 TKPSSS 85 (88)
Q Consensus 80 ip~~~a 85 (88)
|||++|
T Consensus 145 iP~~~A 150 (177)
T TIGR03516 145 FPSHKA 150 (177)
T ss_pred ECHHHc
Confidence 999876
No 6
>KOG0552 consensus FKBP-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]
Probab=99.84 E-value=1.5e-20 Score=121.30 Aligned_cols=80 Identities=39% Similarity=0.675 Sum_probs=75.0
Q ss_pred CeEEEEeccCCCCCCCCCCEEEEEEEEEEeCCCceeeEeccCCCCCccEE-EEeCCCCccccHHHHhcCCCCCcEEEEEE
Q 034638 2 GIEKQILTPGNGPKPVAGQKVTVHCTGYGKNGDLSQKFWSTKDPGQQPFT-FQIGKGSVIKGWDEGVMGMQVGEVARLRT 80 (88)
Q Consensus 2 Gv~~~vl~~G~g~~~~~gd~V~i~y~~~~~~gg~~~~~~~t~~~~~~p~~-~~lG~~~~~~g~~~al~~m~~G~~~~~~i 80 (88)
||+|+.++-|+|..+..|+.|.+||.+++..+| ++||+++. .+|+. |.+|.+.+|+||+.++.+|++|++++|+|
T Consensus 121 Gl~y~D~~vG~G~~a~~G~rV~v~Y~Gkl~~~G--kvFd~~~~--~kp~~~f~lg~g~VIkG~d~gv~GMkvGGkRrviI 196 (226)
T KOG0552|consen 121 GLRYEDLRVGSGPSAKKGKRVSVRYIGKLKGNG--KVFDSNFG--GKPFKLFRLGSGEVIKGWDVGVEGMKVGGKRRVII 196 (226)
T ss_pred CcEEEEEEecCCCCCCCCCEEEEEEEEEecCCC--eEeecccC--CCCccccccCCCCCCchHHHhhhhhccCCeeEEEe
Confidence 899999999999999999999999999998444 99999998 35888 99999999999999999999999999999
Q ss_pred CCCCC
Q 034638 81 KPSSS 85 (88)
Q Consensus 81 p~~~a 85 (88)
||++|
T Consensus 197 Pp~lg 201 (226)
T KOG0552|consen 197 PPELG 201 (226)
T ss_pred Ccccc
Confidence 99987
No 7
>PRK10902 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional
Probab=99.83 E-value=7.7e-20 Score=121.36 Aligned_cols=79 Identities=27% Similarity=0.546 Sum_probs=72.9
Q ss_pred CCeEEEEeccCCCCCCCCCCEEEEEEEEEEeCCCceeeEeccCCCCCccEEEEeCCCCccccHHHHhcCCCCCcEEEEEE
Q 034638 1 MGIEKQILTPGNGPKPVAGQKVTVHCTGYGKNGDLSQKFWSTKDPGQQPFTFQIGKGSVIKGWDEGVMGMQVGEVARLRT 80 (88)
Q Consensus 1 ~Gv~~~vl~~G~g~~~~~gd~V~i~y~~~~~~gg~~~~~~~t~~~~~~p~~~~lG~~~~~~g~~~al~~m~~G~~~~~~i 80 (88)
.|++|+++++|+|..|+.||.|.+||++++.|| ++|++++.++ .|+.|.+ +.++|||+++|.+|++|++++|+|
T Consensus 146 sGl~y~Vi~~G~G~~p~~gD~V~V~Y~g~l~dG---~vfdss~~~g-~p~~f~l--~~vipG~~EaL~~Mk~Gek~~l~I 219 (269)
T PRK10902 146 TGLLYKVEKEGTGEAPKDSDTVVVNYKGTLIDG---KEFDNSYTRG-EPLSFRL--DGVIPGWTEGLKNIKKGGKIKLVI 219 (269)
T ss_pred CccEEEEEeCCCCCCCCCCCEEEEEEEEEeCCC---CEeeccccCC-CceEEec--CCcchHHHHHHhcCCCCcEEEEEE
Confidence 389999999999999999999999999999888 9999999865 5999998 579999999999999999999999
Q ss_pred CCCCC
Q 034638 81 KPSSS 85 (88)
Q Consensus 81 p~~~a 85 (88)
|+++|
T Consensus 220 P~~la 224 (269)
T PRK10902 220 PPELA 224 (269)
T ss_pred Cchhh
Confidence 99864
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=8.2e-19 Score=99.91 Aligned_cols=67 Identities=39% Similarity=0.729 Sum_probs=61.9
Q ss_pred CCCCCCEEEEEEEEEEeCCCceeeEeccCCCCCccEEEEeCCCCccccHHHHhcCCCCCcEEEEEECCCCC
Q 034638 15 KPVAGQKVTVHCTGYGKNGDLSQKFWSTKDPGQQPFTFQIGKGSVIKGWDEGVMGMQVGEVARLRTKPSSS 85 (88)
Q Consensus 15 ~~~~gd~V~i~y~~~~~~gg~~~~~~~t~~~~~~p~~~~lG~~~~~~g~~~al~~m~~G~~~~~~ip~~~a 85 (88)
+|+.||.|.+||++++.++ +.|++++..+ +|+.|.+|.+++++||+++|.+|++||+++|.|||++|
T Consensus 4 ~~~~gd~V~i~y~~~~~~g---~~~~~~~~~~-~~~~~~~g~~~~i~g~e~al~~m~~Ge~~~~~vp~~~a 70 (94)
T PF00254_consen 4 TPKEGDTVTIHYTGRLEDG---KVFDSSYQEG-EPFEFRLGSGQVIPGLEEALIGMKVGEKREFYVPPELA 70 (94)
T ss_dssp SBSTTSEEEEEEEEEETTS---EEEEETTTTT-SEEEEETTSSSSSHHHHHHHTTSBTTEEEEEEEEGGGT
T ss_pred cCCCCCEEEEEEEEEECCC---cEEEEeeecC-cceeeeeccCccccchhhhcccccCCCEeeeEeCChhh
Confidence 3899999999999999866 9999997744 59999999999999999999999999999999999875
No 9
>PRK15095 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional
Probab=99.74 E-value=8.6e-18 Score=104.05 Aligned_cols=67 Identities=27% Similarity=0.496 Sum_probs=61.9
Q ss_pred CCCCCCEEEEEEEEEEeCCCceeeEeccCCCCCccEEEEeCCCCccccHHHHhcCCCCCcEEEEEECCCCC
Q 034638 15 KPVAGQKVTVHCTGYGKNGDLSQKFWSTKDPGQQPFTFQIGKGSVIKGWDEGVMGMQVGEVARLRTKPSSS 85 (88)
Q Consensus 15 ~~~~gd~V~i~y~~~~~~gg~~~~~~~t~~~~~~p~~~~lG~~~~~~g~~~al~~m~~G~~~~~~ip~~~a 85 (88)
.++.+|.|.+||++++.|| ++|++|+..+ +|+.|.+|.+++++||++||.+|++|+++.+.|||++|
T Consensus 4 ~i~~~~~V~v~Y~~~~~dG---~v~dst~~~~-~P~~f~~G~g~vi~gle~aL~gm~~Ge~~~v~ipp~~a 70 (156)
T PRK15095 4 SVQSNSAVLVHFTLKLDDG---STAESTRNNG-KPALFRLGDGSLSEGLEQQLLGLKVGDKKTFSLEPEAA 70 (156)
T ss_pred ccCCCCEEEEEEEEEeCCC---CEEEECCCCC-CCEEEEeCCCCccHHHHHHHcCCCCCCEEEEEEChHHh
Confidence 4789999999999999777 9999998754 59999999999999999999999999999999999865
No 10
>COG1047 SlpA FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]
Probab=99.66 E-value=5.8e-16 Score=96.73 Aligned_cols=67 Identities=30% Similarity=0.486 Sum_probs=61.8
Q ss_pred CCCCCCEEEEEEEEEEeCCCceeeEeccCCCCCccEEEEeCCCCccccHHHHhcCCCCCcEEEEEECCCCC
Q 034638 15 KPVAGQKVTVHCTGYGKNGDLSQKFWSTKDPGQQPFTFQIGKGSVIKGWDEGVMGMQVGEVARLRTKPSSS 85 (88)
Q Consensus 15 ~~~~gd~V~i~y~~~~~~gg~~~~~~~t~~~~~~p~~~~lG~~~~~~g~~~al~~m~~G~~~~~~ip~~~a 85 (88)
.++.||.|+++|++++.|| ++||+|.... .|+.|.+|.+++++|||+||.+|.+|++..+.|||+.|
T Consensus 2 ~i~k~~~V~i~Y~~~~~dg---~v~Dtt~e~~-~P~~~i~G~g~li~glE~al~g~~~Ge~~~V~IpPE~A 68 (174)
T COG1047 2 KIEKGDVVSLHYTLKVEDG---EVVDTTDENY-GPLTFIVGAGQLIPGLEEALLGKEVGEEFTVEIPPEDA 68 (174)
T ss_pred cccCCCEEEEEEEEEecCC---cEEEcccccC-CCeEEEecCCCcchhHHHHHhCCCCCceeEEEeCchHh
Confidence 3688999999999999886 9999998733 59999999999999999999999999999999999876
No 11
>PRK10737 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional
Probab=99.64 E-value=1.1e-15 Score=97.48 Aligned_cols=65 Identities=17% Similarity=0.275 Sum_probs=60.3
Q ss_pred CCCCCEEEEEEEEEEeCCCceeeEeccCCCCCccEEEEeCCCCccccHHHHhcCCCCCcEEEEEECCCCC
Q 034638 16 PVAGQKVTVHCTGYGKNGDLSQKFWSTKDPGQQPFTFQIGKGSVIKGWDEGVMGMQVGEVARLRTKPSSS 85 (88)
Q Consensus 16 ~~~gd~V~i~y~~~~~~gg~~~~~~~t~~~~~~p~~~~lG~~~~~~g~~~al~~m~~G~~~~~~ip~~~a 85 (88)
++.++.|+++|++++.+| ++|++|+. ..|+.|.+|.++++|+||+||.+|++|++.+|.|||+.|
T Consensus 3 I~~~~vV~l~Y~l~~~dG---~v~dst~~--~~Pl~~~~G~g~lipglE~aL~G~~~Gd~~~v~l~peeA 67 (196)
T PRK10737 3 VAKDLVVSLAYQVRTEDG---VLVDESPV--SAPLDYLHGHGSLISGLETALEGHEVGDKFDVAVGANDA 67 (196)
T ss_pred cCCCCEEEEEEEEEeCCC---CEEEecCC--CCCeEEEeCCCcchHHHHHHHcCCCCCCEEEEEEChHHh
Confidence 678999999999999777 99999986 369999999999999999999999999999999999865
No 12
>KOG0543 consensus FKBP-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]
Probab=99.34 E-value=9.8e-12 Score=85.86 Aligned_cols=76 Identities=34% Similarity=0.493 Sum_probs=66.5
Q ss_pred CeEEEEeccCCC--CCCCCCCEEEEEEEEEEeCCCceeeEeccCCCCCccEEEEeCC-CCccccHHHHhcCCCCCcEEEE
Q 034638 2 GIEKQILTPGNG--PKPVAGQKVTVHCTGYGKNGDLSQKFWSTKDPGQQPFTFQIGK-GSVIKGWDEGVMGMQVGEVARL 78 (88)
Q Consensus 2 Gv~~~vl~~G~g--~~~~~gd~V~i~y~~~~~~gg~~~~~~~t~~~~~~p~~~~lG~-~~~~~g~~~al~~m~~G~~~~~ 78 (88)
+|.++|+++|.| ..|..|..|.+||.+++.+ .+|+++.. .+.|..|+ ..++.|++.||..|++||.+.|
T Consensus 85 ~iiKriir~G~gd~~~P~~g~~V~v~~~G~~~~----~~f~~~~~----~fe~~~Ge~~~vi~Gle~al~~M~~GE~a~v 156 (397)
T KOG0543|consen 85 GIIKRIIREGEGDYSRPNKGAVVKVHLEGELED----GVFDQREL----RFEFGEGEDIDVIEGLEIALRMMKVGEVALV 156 (397)
T ss_pred ceEEeeeecCCCCCCCCCCCcEEEEEEEEEECC----cceecccc----ceEEecCCccchhHHHHHHHHhcCccceEEE
Confidence 688999999999 5599999999999999854 56776544 58888887 5899999999999999999999
Q ss_pred EECCCCC
Q 034638 79 RTKPSSS 85 (88)
Q Consensus 79 ~ip~~~a 85 (88)
+|+|++|
T Consensus 157 ~i~~~Ya 163 (397)
T KOG0543|consen 157 TIDPKYA 163 (397)
T ss_pred EeCcccc
Confidence 9999886
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=99.03 E-value=1.4e-09 Score=75.84 Aligned_cols=62 Identities=27% Similarity=0.602 Sum_probs=55.6
Q ss_pred CCCCCCCEEEEEEEEEEeCCCceeeEeccCCCCCccEEEEeCCCCccccHHHHhcCCCCCcEEEEEECC
Q 034638 14 PKPVAGQKVTVHCTGYGKNGDLSQKFWSTKDPGQQPFTFQIGKGSVIKGWDEGVMGMQVGEVARLRTKP 82 (88)
Q Consensus 14 ~~~~~gd~V~i~y~~~~~~gg~~~~~~~t~~~~~~p~~~~lG~~~~~~g~~~al~~m~~G~~~~~~ip~ 82 (88)
.+++.||.|.++|+++. +| +.++++.. .++.|.+|.+.+++||+++|.||++|+++.|.+|.
T Consensus 145 ~~~~~gD~V~v~~~~~~-dg---~~~~~~~~---~~~~~~lg~~~~~~~~ee~L~G~k~Gd~~~~~v~~ 206 (408)
T TIGR00115 145 RAAEKGDRVTIDFEGFI-DG---EAFEGGKA---ENFSLELGSGQFIPGFEEQLVGMKAGEEKEIKVTF 206 (408)
T ss_pred cccCCCCEEEEEEEEEE-CC---EECcCCCC---CCeEEEECCCCcchhHHHHhCCCCCCCeeEEEecC
Confidence 45899999999999986 66 88988764 59999999999999999999999999999999874
No 14
>COG0544 Tig FKBP-type peptidyl-prolyl cis-trans isomerase (trigger factor) [Posttranslational modification, protein turnover, chaperones]
Probab=99.02 E-value=1.2e-09 Score=77.08 Aligned_cols=62 Identities=26% Similarity=0.550 Sum_probs=54.6
Q ss_pred CCCCCEEEEEEEEEEeCCCceeeEeccCCCCCccEEEEeCCCCccccHHHHhcCCCCCcEEE--EEECCCC
Q 034638 16 PVAGQKVTVHCTGYGKNGDLSQKFWSTKDPGQQPFTFQIGKGSVIKGWDEGVMGMQVGEVAR--LRTKPSS 84 (88)
Q Consensus 16 ~~~gd~V~i~y~~~~~~gg~~~~~~~t~~~~~~p~~~~lG~~~~~~g~~~al~~m~~G~~~~--~~ip~~~ 84 (88)
++.||.|+|+|.++. || ..|+.... +.+.+.+|+++++|||+++|.||++|++.. ++.|.++
T Consensus 158 a~~gD~v~IDf~g~i-Dg---~~fegg~a---e~~~l~lGs~~fipgFe~~LvG~k~Ge~k~i~vtFP~dy 221 (441)
T COG0544 158 AENGDRVTIDFEGSV-DG---EEFEGGKA---ENFSLELGSGRFIPGFEDQLVGMKAGEEKDIKVTFPEDY 221 (441)
T ss_pred cccCCEEEEEEEEEE-cC---eeccCccc---cCeEEEEcCCCchhhHHhhhccCcCCCeeEEEEEccccc
Confidence 899999999999975 77 88887665 589999999999999999999999999977 5667665
No 15
>PRK01490 tig trigger factor; Provisional
Probab=98.98 E-value=3.8e-09 Score=74.27 Aligned_cols=61 Identities=28% Similarity=0.583 Sum_probs=54.5
Q ss_pred CCCCCCCEEEEEEEEEEeCCCceeeEeccCCCCCccEEEEeCCCCccccHHHHhcCCCCCcEEEEEEC
Q 034638 14 PKPVAGQKVTVHCTGYGKNGDLSQKFWSTKDPGQQPFTFQIGKGSVIKGWDEGVMGMQVGEVARLRTK 81 (88)
Q Consensus 14 ~~~~~gd~V~i~y~~~~~~gg~~~~~~~t~~~~~~p~~~~lG~~~~~~g~~~al~~m~~G~~~~~~ip 81 (88)
.+++.||.|.++|.++. +| +.|+++.. .++.|.+|.+.+++||+++|.||++|+++.|.++
T Consensus 156 ~~~~~gD~V~vd~~~~~-~g---~~~~~~~~---~~~~~~lg~~~~~~~fee~L~G~k~Ge~~~~~~~ 216 (435)
T PRK01490 156 RPAENGDRVTIDFVGSI-DG---EEFEGGKA---EDFSLELGSGRFIPGFEEQLVGMKAGEEKTIDVT 216 (435)
T ss_pred ccCCCCCEEEEEEEEEE-CC---EECcCCCC---CceEEEEcCCCcchhHHHHhCCCCCCCeeEEEec
Confidence 45899999999999997 66 88887655 5899999999999999999999999999998775
No 16
>KOG0543 consensus FKBP-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]
Probab=98.94 E-value=1.7e-09 Score=74.96 Aligned_cols=63 Identities=54% Similarity=0.956 Sum_probs=57.5
Q ss_pred ccCCCCC-CCCCCEEEEEEEEEEeCCCceeeEeccCCCCCccEEEEeCCCCccccHHHHhcCCCCCcEE
Q 034638 9 TPGNGPK-PVAGQKVTVHCTGYGKNGDLSQKFWSTKDPGQQPFTFQIGKGSVIKGWDEGVMGMQVGEVA 76 (88)
Q Consensus 9 ~~G~g~~-~~~gd~V~i~y~~~~~~gg~~~~~~~t~~~~~~p~~~~lG~~~~~~g~~~al~~m~~G~~~ 76 (88)
++|.|.. |..||.|.+||++++.|| +.||||.+ + .|+.|.+|.+.++.||..++..|+.|+..
T Consensus 1 ~eg~g~~~p~~g~~v~~hytg~l~dg---t~fdss~d-~-~~~~~~lg~g~vi~~~~~gv~tm~~g~~~ 64 (397)
T KOG0543|consen 1 KEGTGTETPMTGDKVEVHYTGTLLDG---TKFDSSRD-G-DPFKFDLGKGSVIKGWDLGVATMKKGEAG 64 (397)
T ss_pred CCCCCccCCCCCceeEEEEeEEecCC---eecccccC-C-CceeeecCCCccccccccccccccccccC
Confidence 4688877 999999999999999999 99999998 4 69999999999999999999999987653
No 17
>KOG0545 consensus Aryl-hydrocarbon receptor-interacting protein [Posttranslational modification, protein turnover, chaperones]
Probab=98.58 E-value=1.8e-08 Score=66.74 Aligned_cols=79 Identities=25% Similarity=0.421 Sum_probs=68.9
Q ss_pred CeEEEEeccCCCCC--CCCCCEEEEEEEEEEeCCCceeeEeccCCCCCccEEEEeCCCCccccHHHHhcCCCCCcEEEEE
Q 034638 2 GIEKQILTPGNGPK--PVAGQKVTVHCTGYGKNGDLSQKFWSTKDPGQQPFTFQIGKGSVIKGWDEGVMGMQVGEVARLR 79 (88)
Q Consensus 2 Gv~~~vl~~G~g~~--~~~gd~V~i~y~~~~~~gg~~~~~~~t~~~~~~p~~~~lG~~~~~~g~~~al~~m~~G~~~~~~ 79 (88)
||.++++..|+|+- ..+|..|.+||.....+.. ++++|+|+..+ +|..+.+|..--++-||..|..|+++|.+.|.
T Consensus 11 gv~Kril~~G~g~l~e~~dGTrv~FHfrtl~~~e~-~tviDDsRk~g-kPmeiiiGkkFkL~VwE~il~tM~v~EvaqF~ 88 (329)
T KOG0545|consen 11 GVKKRILHGGTGELPEFIDGTRVIFHFRTLKCDEE-RTVIDDSRKVG-KPMEIIIGKKFKLEVWEIILTTMRVHEVAQFW 88 (329)
T ss_pred hhhHhhccCCCccCccccCCceEEEEEEecccCcc-cccccchhhcC-CCeEEeeccccccHHHHHHHHHHhhhhHHHhh
Confidence 78899999999976 6799999999999876542 26999999877 59999999888899999999999999998887
Q ss_pred ECC
Q 034638 80 TKP 82 (88)
Q Consensus 80 ip~ 82 (88)
|..
T Consensus 89 ~d~ 91 (329)
T KOG0545|consen 89 CDT 91 (329)
T ss_pred hhh
Confidence 753
No 18
>KOG0549 consensus FKBP-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]
Probab=97.53 E-value=3.2e-05 Score=48.95 Aligned_cols=34 Identities=35% Similarity=0.608 Sum_probs=31.3
Q ss_pred EEeCCCCccccHHHHhcCCCCCcEEEEEECCCCC
Q 034638 52 FQIGKGSVIKGWDEGVMGMQVGEVARLRTKPSSS 85 (88)
Q Consensus 52 ~~lG~~~~~~g~~~al~~m~~G~~~~~~ip~~~a 85 (88)
|++|.+.++++++.+|.+|..|+++++.+||+++
T Consensus 1 ~~~g~~~vi~gm~~~~~g~c~ge~rkvv~pp~l~ 34 (188)
T KOG0549|consen 1 FTLGQGFVIPGMDQALEGMCNGEKRKVVIPPHLG 34 (188)
T ss_pred CcccceEEecCHHHHhhhhhccccceeccCCccc
Confidence 3577889999999999999999999999999986
No 19
>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=76.39 E-value=3.7 Score=22.16 Aligned_cols=24 Identities=13% Similarity=0.245 Sum_probs=19.0
Q ss_pred cccHHHHhcCCCCCcEEEEEECCC
Q 034638 60 IKGWDEGVMGMQVGEVARLRTKPS 83 (88)
Q Consensus 60 ~~g~~~al~~m~~G~~~~~~ip~~ 83 (88)
..-+-.||.+.++||.+.+.+|..
T Consensus 43 ~SPLG~ALlG~~~Gd~v~~~~~~g 66 (77)
T PF01272_consen 43 DSPLGKALLGKKVGDEVEVELPGG 66 (77)
T ss_dssp TSHHHHHHTT-BTT-EEEEEETTB
T ss_pred cCHHHHHhcCCCCCCEEEEEeCCc
Confidence 456999999999999999999863
No 20
>PRK00226 greA transcription elongation factor GreA; Reviewed
Probab=76.25 E-value=5.9 Score=24.38 Aligned_cols=26 Identities=19% Similarity=0.340 Sum_probs=22.1
Q ss_pred CccccHHHHhcCCCCCcEEEEEECCC
Q 034638 58 SVIKGWDEGVMGMQVGEVARLRTKPS 83 (88)
Q Consensus 58 ~~~~g~~~al~~m~~G~~~~~~ip~~ 83 (88)
++..-+-.||.|.++||.+.+..|..
T Consensus 121 S~~SPlG~aLlGk~~Gd~v~~~~p~g 146 (157)
T PRK00226 121 SIESPIARALIGKKVGDTVEVTTPGG 146 (157)
T ss_pred ccCChHHHHHhCCCCCCEEEEEcCCC
Confidence 34556899999999999999999864
No 21
>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=68.75 E-value=8.1 Score=20.53 Aligned_cols=23 Identities=17% Similarity=0.306 Sum_probs=17.9
Q ss_pred ccHHHHhcCCCCCcEEEEEECCC
Q 034638 61 KGWDEGVMGMQVGEVARLRTKPS 83 (88)
Q Consensus 61 ~g~~~al~~m~~G~~~~~~ip~~ 83 (88)
+.+..|+.-|+.||++.++..+.
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 45889999999999999988764
No 22
>PHA02122 hypothetical protein
Probab=62.79 E-value=20 Score=18.57 Aligned_cols=20 Identities=25% Similarity=0.205 Sum_probs=15.8
Q ss_pred CCCCEEEEEEEEEEeCCCceeeEe
Q 034638 17 VAGQKVTVHCTGYGKNGDLSQKFW 40 (88)
Q Consensus 17 ~~gd~V~i~y~~~~~~gg~~~~~~ 40 (88)
..||.|.++|.... +| +.|-
T Consensus 39 ~~gd~v~vn~e~~~-ng---~l~i 58 (65)
T PHA02122 39 DDGDEVIVNFELVV-NG---KLII 58 (65)
T ss_pred cCCCEEEEEEEEEE-CC---EEEE
Confidence 57899999999986 66 6554
No 23
>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=59.29 E-value=15 Score=22.47 Aligned_cols=26 Identities=23% Similarity=0.433 Sum_probs=22.2
Q ss_pred CccccHHHHhcCCCCCcEEEEEECCC
Q 034638 58 SVIKGWDEGVMGMQVGEVARLRTKPS 83 (88)
Q Consensus 58 ~~~~g~~~al~~m~~G~~~~~~ip~~ 83 (88)
++..-+-.||.|.++||.+.+..|..
T Consensus 116 S~~SPlG~ALlG~~~Gd~v~v~~p~g 141 (151)
T TIGR01462 116 SIDSPLGKALIGKKVGDVVEVQTPKG 141 (151)
T ss_pred cCCCHHHHHHcCCCCCCEEEEEeCCC
Confidence 34566999999999999999998865
No 24
>PRK02268 hypothetical protein; Provisional
Probab=58.03 E-value=8.2 Score=23.70 Aligned_cols=26 Identities=15% Similarity=0.142 Sum_probs=20.5
Q ss_pred CccccHHHHhcCCCCCcEEEEEECCC
Q 034638 58 SVIKGWDEGVMGMQVGEVARLRTKPS 83 (88)
Q Consensus 58 ~~~~g~~~al~~m~~G~~~~~~ip~~ 83 (88)
+++-|=...|..|++||...+++|.+
T Consensus 24 qv~hgK~apl~RmkpGD~ivyYsp~~ 49 (141)
T PRK02268 24 QVCHGKAAPLRRMKPGDWIIYYSPKT 49 (141)
T ss_pred EeCCCccchhhcCCCCCEEEEEeceE
Confidence 34445567789999999999999854
No 25
>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=57.06 E-value=12 Score=20.71 Aligned_cols=26 Identities=19% Similarity=0.498 Sum_probs=21.6
Q ss_pred eCCCCccccHHHHhcCCCCCcEEEEE
Q 034638 54 IGKGSVIKGWDEGVMGMQVGEVARLR 79 (88)
Q Consensus 54 lG~~~~~~g~~~al~~m~~G~~~~~~ 79 (88)
+..+.+.+.|+.++..|++|+-...+
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 44479999999999999999986543
No 26
>PRK05753 nucleoside diphosphate kinase regulator; Provisional
Probab=55.39 E-value=15 Score=22.21 Aligned_cols=25 Identities=16% Similarity=0.286 Sum_probs=21.2
Q ss_pred ccccHHHHhcCCCCCcEEEEEECCC
Q 034638 59 VIKGWDEGVMGMQVGEVARLRTKPS 83 (88)
Q Consensus 59 ~~~g~~~al~~m~~G~~~~~~ip~~ 83 (88)
+..-+-.||.|.++||.+.+..|..
T Consensus 91 i~SPlG~ALlG~~~Gd~v~v~~p~G 115 (137)
T PRK05753 91 VLAPVGAALLGLSVGQSIDWPLPGG 115 (137)
T ss_pred ccCHHHHHHcCCCCCCEEEEECCCC
Confidence 4566999999999999999888753
No 27
>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=54.25 E-value=48 Score=20.22 Aligned_cols=26 Identities=19% Similarity=0.155 Sum_probs=17.2
Q ss_pred CeEEEEeccCCCCC------CCCCCEEEEEEE
Q 034638 2 GIEKQILTPGNGPK------PVAGQKVTVHCT 27 (88)
Q Consensus 2 Gv~~~vl~~G~g~~------~~~gd~V~i~y~ 27 (88)
|+.+..++.+.+.. ++.||.|.++++
T Consensus 45 ~~~~~~i~a~n~~~~P~~I~VkaGD~Vtl~vt 76 (135)
T TIGR03096 45 GVTVKNIRAFNVLNEPEALVVKKGTPVKVTVE 76 (135)
T ss_pred CEEEEEEEeeeeEEcCCEEEECCCCEEEEEEE
Confidence 44555665555421 789999988886
No 28
>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=53.17 E-value=20 Score=22.15 Aligned_cols=25 Identities=12% Similarity=0.203 Sum_probs=21.6
Q ss_pred ccccHHHHhcCCCCCcEEEEEECCC
Q 034638 59 VIKGWDEGVMGMQVGEVARLRTKPS 83 (88)
Q Consensus 59 ~~~g~~~al~~m~~G~~~~~~ip~~ 83 (88)
...-+-.||.|.++||.+.+..|..
T Consensus 119 ~~SPlG~ALlGk~~GD~v~v~~p~g 143 (156)
T TIGR01461 119 IDSPLARALLKKEVGDEVVVNTPAG 143 (156)
T ss_pred CCCHHHHHHcCCCCCCEEEEEcCCC
Confidence 4456999999999999999998865
No 29
>COG0024 Map Methionine aminopeptidase [Translation, ribosomal structure and biogenesis]
Probab=52.70 E-value=67 Score=21.69 Aligned_cols=51 Identities=18% Similarity=0.194 Sum_probs=36.1
Q ss_pred CCCCCCCEEEEEEEEEEeCCCceeeEeccCCCCCccEEEEeCCCC------cc----ccHHHHhcCCCCCcE
Q 034638 14 PKPVAGQKVTVHCTGYGKNGDLSQKFWSTKDPGQQPFTFQIGKGS------VI----KGWDEGVMGMQVGEV 75 (88)
Q Consensus 14 ~~~~~gd~V~i~y~~~~~~gg~~~~~~~t~~~~~~p~~~~lG~~~------~~----~g~~~al~~m~~G~~ 75 (88)
...++||.|.|+..+.. || -.-| ...+|.+|... ++ .+|+.++..+++|-+
T Consensus 85 ~vlk~GDiv~IDvg~~~-dG---~~~D-------sa~T~~vg~~~~~~~~~L~~~t~eal~~~I~~vkpG~~ 145 (255)
T COG0024 85 KVLKEGDIVKIDVGAHI-DG---YIGD-------TAITFVVGEVSDEDAKRLLEATKEALYAGIEAVKPGAR 145 (255)
T ss_pred cccCCCCEEEEEEEEEE-CC---eeee-------EEEEEECCCCChHHHHHHHHHHHHHHHHHHHhccCCCC
Confidence 34899999999999886 66 3333 36777787321 32 568888888998865
No 30
>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=51.64 E-value=28 Score=18.20 Aligned_cols=19 Identities=16% Similarity=0.263 Sum_probs=16.8
Q ss_pred HHHHhcCCCCCcEEEEEEC
Q 034638 63 WDEGVMGMQVGEVARLRTK 81 (88)
Q Consensus 63 ~~~al~~m~~G~~~~~~ip 81 (88)
...+|..|++|+...+.+.
T Consensus 16 ~kkal~~l~~G~~l~V~~d 34 (69)
T cd03420 16 LKKEIDKLQDGEQLEVKAS 34 (69)
T ss_pred HHHHHHcCCCCCEEEEEEC
Confidence 7899999999999888775
No 31
>PRK05892 nucleoside diphosphate kinase regulator; Provisional
Probab=49.47 E-value=24 Score=21.92 Aligned_cols=24 Identities=17% Similarity=0.232 Sum_probs=20.9
Q ss_pred cccHHHHhcCCCCCcEEEEEECCC
Q 034638 60 IKGWDEGVMGMQVGEVARLRTKPS 83 (88)
Q Consensus 60 ~~g~~~al~~m~~G~~~~~~ip~~ 83 (88)
..-+-.||.|.++||.+.+..|..
T Consensus 122 ~SPlG~ALlGk~vGD~v~v~~p~g 145 (158)
T PRK05892 122 DSPLGQALAGHQAGDTVTYSTPQG 145 (158)
T ss_pred CCHHHHHHhCCCCCCEEEEEcCCC
Confidence 456899999999999999998864
No 32
>PF11012 DUF2850: Protein of unknown function (DUF2850); InterPro: IPR021271 This family of proteins with unknown function appear to be restricted to Vibrionaceae.
Probab=46.54 E-value=40 Score=18.64 Aligned_cols=43 Identities=21% Similarity=0.405 Sum_probs=31.6
Q ss_pred CCCCCCCCEEEEEEEEEEeCCCceeeEeccCCCCCccEEEEeCCCC
Q 034638 13 GPKPVAGQKVTVHCTGYGKNGDLSQKFWSTKDPGQQPFTFQIGKGS 58 (88)
Q Consensus 13 g~~~~~gd~V~i~y~~~~~~gg~~~~~~~t~~~~~~p~~~~lG~~~ 58 (88)
+.++=.-|.+.++=.+...+| .++.++++-+.+.+.+.+|.+.
T Consensus 10 ~va~Ya~e~~~l~~~GV~~ng---rlV~T~F~fDG~~l~~~~G~~~ 52 (79)
T PF11012_consen 10 GVAPYAAEEFTLNESGVFRNG---RLVATSFEFDGKTLEYRTGSGT 52 (79)
T ss_pred CCCCccccEEEECCCcEEECC---CEEeeEEEECCCEEEEEECCeE
Confidence 334556678888888888788 7888877755568888888764
No 33
>PRK01885 greB transcription elongation factor GreB; Reviewed
Probab=46.23 E-value=29 Score=21.49 Aligned_cols=24 Identities=13% Similarity=0.190 Sum_probs=21.2
Q ss_pred cccHHHHhcCCCCCcEEEEEECCC
Q 034638 60 IKGWDEGVMGMQVGEVARLRTKPS 83 (88)
Q Consensus 60 ~~g~~~al~~m~~G~~~~~~ip~~ 83 (88)
..-+-.||.|.++||.+.+.+|..
T Consensus 122 ~SPlG~ALlGk~vGd~v~v~~p~g 145 (157)
T PRK01885 122 DSPMARALLKKEVGDEVTVNTPAG 145 (157)
T ss_pred cCHHHHHHhCCCCCCEEEEEcCCC
Confidence 456899999999999999998864
No 34
>PF03894 XFP: D-xylulose 5-phosphate/D-fructose 6-phosphate phosphoketolase; InterPro: IPR005593 Phosphoketolases (PK) are key enzymes of the pentose phosphate pathway of heterofermentative and facultative homofermentative lactic acid bacteria and of the D-fructose 6-phosphate shunt of bifidobacteria. PK activity has been sporadically reported in other microorganisms including eukaryotic yeasts. Xylulose-5-phosphate/fructose-6-phosphate phosphoketolase is a thiamine diphosphate (ThdP)-dependent enzyme found in bacteria such as Bifidobacterium sp [, ]. This enzyme has dual-specificity with the following catalytic activities: 4.1.2.9 from EC: xylose 5-P + Pi = acetyl-P + glyeraldehyde-3-P 4.1.2.22 from EC: fructose-6-P + Pi = acetyl-P + erythrose-4-P Phosphoketolases are distantly related to transketolases, e.g. IPR005475 from INTERPRO.; GO: 0016832 aldehyde-lyase activity, 0005975 carbohydrate metabolic process; PDB: 3AI7_B 3AHC_A 3AHJ_A 3AHG_A 3AHE_A 3AHI_A 3AHD_A 3AHF_A 3AHH_A.
Probab=45.86 E-value=22 Score=22.74 Aligned_cols=24 Identities=21% Similarity=0.335 Sum_probs=15.5
Q ss_pred ccccHHHHhcCCCCCcEEEEEECCC
Q 034638 59 VIKGWDEGVMGMQVGEVARLRTKPS 83 (88)
Q Consensus 59 ~~~g~~~al~~m~~G~~~~~~ip~~ 83 (88)
.=|||.+.+.+.+ .+.+++++||+
T Consensus 142 QdPgfi~~~~~k~-~~~~RvylPpD 165 (179)
T PF03894_consen 142 QDPGFIDHVLNKK-PDVVRVYLPPD 165 (179)
T ss_dssp ---THHHHHHCC---T-EEEEE-SS
T ss_pred CCChHHHHHHhcC-cccceeecCCc
Confidence 4589999999987 55999999996
No 35
>PRK00299 sulfur transfer protein SirA; Reviewed
Probab=45.69 E-value=37 Score=18.43 Aligned_cols=25 Identities=24% Similarity=0.173 Sum_probs=21.0
Q ss_pred CCcccc----HHHHhcCCCCCcEEEEEEC
Q 034638 57 GSVIKG----WDEGVMGMQVGEVARLRTK 81 (88)
Q Consensus 57 ~~~~~g----~~~al~~m~~G~~~~~~ip 81 (88)
|..+|. ..++|..|++|+...+...
T Consensus 16 Gl~CP~Pll~~kk~l~~l~~G~~l~V~~d 44 (81)
T PRK00299 16 GLRCPEPVMMVRKTVRNMQPGETLLIIAD 44 (81)
T ss_pred CCCCCHHHHHHHHHHHcCCCCCEEEEEeC
Confidence 566777 8999999999999888764
No 36
>COG0425 SirA Predicted redox protein, regulator of disulfide bond formation [Posttranslational modification, protein turnover, chaperones]
Probab=44.41 E-value=35 Score=18.55 Aligned_cols=20 Identities=10% Similarity=0.227 Sum_probs=17.5
Q ss_pred HHHHhcCCCCCcEEEEEECC
Q 034638 63 WDEGVMGMQVGEVARLRTKP 82 (88)
Q Consensus 63 ~~~al~~m~~G~~~~~~ip~ 82 (88)
...+|..|++|+...|....
T Consensus 22 ~kk~l~~m~~Ge~LeV~~dd 41 (78)
T COG0425 22 TKKALAKLKPGEILEVIADD 41 (78)
T ss_pred HHHHHHcCCCCCEEEEEecC
Confidence 78999999999999988753
No 37
>PF01878 EVE: EVE domain; InterPro: IPR002740 The EVE domain is part of the wider PUA domain superfamily. The function of this domain is not known but, given the structural similarities to PUA, is likely to involve RNA binding []. ; PDB: 2G2X_B 2AR1_A 3EOP_A 2EVE_A 2HD9_A 2ZBN_A 1WMM_A 2P5D_A 2GBS_A 1ZCE_A.
Probab=44.18 E-value=21 Score=21.32 Aligned_cols=17 Identities=12% Similarity=0.149 Sum_probs=12.5
Q ss_pred HhcCCCCCcEEEEEECC
Q 034638 66 GVMGMQVGEVARLRTKP 82 (88)
Q Consensus 66 al~~m~~G~~~~~~ip~ 82 (88)
.|+.|++||++.++.+.
T Consensus 36 ~l~~mk~GD~vifY~s~ 52 (143)
T PF01878_consen 36 NLKRMKPGDKVIFYHSG 52 (143)
T ss_dssp HHHC--TT-EEEEEETS
T ss_pred hhhcCCCCCEEEEEEcC
Confidence 77899999999999876
No 38
>PRK00809 hypothetical protein; Provisional
Probab=43.44 E-value=28 Score=21.32 Aligned_cols=24 Identities=8% Similarity=0.163 Sum_probs=19.7
Q ss_pred ccccHHHHhcCCCCCcEEEEEECC
Q 034638 59 VIKGWDEGVMGMQVGEVARLRTKP 82 (88)
Q Consensus 59 ~~~g~~~al~~m~~G~~~~~~ip~ 82 (88)
+..+=...|..|++||.+.++.+.
T Consensus 24 ~~~~~rn~lr~Mk~GD~v~fYhs~ 47 (144)
T PRK00809 24 VPERYKNTIEKVKPGDKLIIYVSQ 47 (144)
T ss_pred cchhhhhHHhhCCCCCEEEEEECC
Confidence 455566778889999999999886
No 39
>PF07076 DUF1344: Protein of unknown function (DUF1344); InterPro: IPR009780 This family consists of several short, hypothetical bacterial proteins of around 80 residues in length. Members of this family are found in Rhizobium, Agrobacterium and Brucella species. The function of this family is unknown.
Probab=41.80 E-value=54 Score=17.23 Aligned_cols=31 Identities=16% Similarity=0.298 Sum_probs=20.6
Q ss_pred cEEEEeCCCC---ccccHHHHhcCCCCCcEEEEEEC
Q 034638 49 PFTFQIGKGS---VIKGWDEGVMGMQVGEVARLRTK 81 (88)
Q Consensus 49 p~~~~lG~~~---~~~g~~~al~~m~~G~~~~~~ip 81 (88)
...++|.+|+ +++.|. +.++++|.++.+..-
T Consensus 16 ~~titLdDGksy~lp~ef~--~~~L~~G~kV~V~yd 49 (61)
T PF07076_consen 16 TMTITLDDGKSYKLPEEFD--FDGLKPGMKVVVFYD 49 (61)
T ss_pred ceEEEecCCCEEECCCccc--ccccCCCCEEEEEEE
Confidence 4555555553 344454 789999999988764
No 40
>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=40.73 E-value=41 Score=16.12 Aligned_cols=23 Identities=17% Similarity=0.362 Sum_probs=17.2
Q ss_pred ccccHHHHhcCCCCCcEEEEEECC
Q 034638 59 VIKGWDEGVMGMQVGEVARLRTKP 82 (88)
Q Consensus 59 ~~~g~~~al~~m~~G~~~~~~ip~ 82 (88)
++..|.+.+ ++++|+...+.+-.
T Consensus 11 iPk~~~~~l-~l~~Gd~v~i~~~~ 33 (47)
T PF04014_consen 11 IPKEIREKL-GLKPGDEVEIEVEG 33 (47)
T ss_dssp E-HHHHHHT-TSSTTTEEEEEEET
T ss_pred CCHHHHHHc-CCCCCCEEEEEEeC
Confidence 356677777 89999999887754
No 41
>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=40.63 E-value=1.1e+02 Score=20.87 Aligned_cols=51 Identities=12% Similarity=0.082 Sum_probs=33.0
Q ss_pred CCCCCCCEEEEEEEEEEeCCCceeeEeccCCCCCccEEEEeCCC--C----ccccHHHHhcCCCCCcE
Q 034638 14 PKPVAGQKVTVHCTGYGKNGDLSQKFWSTKDPGQQPFTFQIGKG--S----VIKGWDEGVMGMQVGEV 75 (88)
Q Consensus 14 ~~~~~gd~V~i~y~~~~~~gg~~~~~~~t~~~~~~p~~~~lG~~--~----~~~g~~~al~~m~~G~~ 75 (88)
..+++||.|.++.-+.. || =.-| ...++.+|.. . +..+.+.|+..+++|-+
T Consensus 73 ~~l~~GDvV~iD~G~~~-dG---Y~aD-------~arT~~vG~~~~~l~~a~~~A~~aai~~~kPGv~ 129 (295)
T TIGR00501 73 TVFKDGDVVKLDLGAHV-DG---YIAD-------TAITVDLGDQYDNLVKAAKDALYTAIKEIRAGVR 129 (295)
T ss_pred ccCCCCCEEEEEEeEEE-CC---EEEE-------EEEEEEeCcHHHHHHHHHHHHHHHHHHHhcCCCC
Confidence 45889999999987664 55 3333 2455566643 1 24567778888888843
No 42
>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=40.54 E-value=95 Score=20.98 Aligned_cols=51 Identities=12% Similarity=0.037 Sum_probs=33.4
Q ss_pred CCCCCCCEEEEEEEEEEeCCCceeeEeccCCCCCccEEEEeCCC------CccccHHHHhcCCCCCcE
Q 034638 14 PKPVAGQKVTVHCTGYGKNGDLSQKFWSTKDPGQQPFTFQIGKG------SVIKGWDEGVMGMQVGEV 75 (88)
Q Consensus 14 ~~~~~gd~V~i~y~~~~~~gg~~~~~~~t~~~~~~p~~~~lG~~------~~~~g~~~al~~m~~G~~ 75 (88)
..+++||.|.++.-+.. +| -.-|. ..+|.+|.. ....+++.++..+++|-+
T Consensus 69 ~~l~~GDvV~iD~G~~~-dG---Y~sD~-------arT~~vg~~~~~l~ea~~~A~~~ai~~ikPG~~ 125 (291)
T cd01088 69 TVLKEGDVVKLDFGAHV-DG---YIADS-------AFTVDFDPKYDDLLEAAKEALNAAIKEAGPDVR 125 (291)
T ss_pred cccCCCCEEEEEEEEEE-CC---EEEEE-------EEEEecChhHHHHHHHHHHHHHHHHHHhcCCCc
Confidence 45899999999987654 55 33332 334455532 134678888899999854
No 43
>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=39.67 E-value=1.2e+02 Score=21.67 Aligned_cols=51 Identities=16% Similarity=0.089 Sum_probs=33.7
Q ss_pred CCCCCCCEEEEEEEEEEeCCCceeeEeccCCCCCccEEEEeCCC----------Cc----cccHHHHhcCCCCCcE
Q 034638 14 PKPVAGQKVTVHCTGYGKNGDLSQKFWSTKDPGQQPFTFQIGKG----------SV----IKGWDEGVMGMQVGEV 75 (88)
Q Consensus 14 ~~~~~gd~V~i~y~~~~~~gg~~~~~~~t~~~~~~p~~~~lG~~----------~~----~~g~~~al~~m~~G~~ 75 (88)
..++.||.|.|++-+.. || =.-|. ..+|.+|.. .+ ..+++.++..+++|-+
T Consensus 99 ~~Lk~GDvVkIDlG~~i-dG---Y~aD~-------arTv~vG~~~~~~~t~~~~~l~~aa~~A~~aai~~vkPG~~ 163 (389)
T TIGR00495 99 YILKEGDVVKIDLGCHI-DG---FIALV-------AHTFVVGVAQEEPVTGRKADVIAAAHLAAEAALRLVKPGNT 163 (389)
T ss_pred cCcCCCCEEEEEEEEEE-CC---EEEEE-------EEEEEECCcccccCCHHHHHHHHHHHHHHHHHHHHhCCCCc
Confidence 34899999999988876 65 33332 455666631 11 2556788899999854
No 44
>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=39.38 E-value=41 Score=17.58 Aligned_cols=19 Identities=16% Similarity=0.226 Sum_probs=16.4
Q ss_pred HHHHhcCCCCCcEEEEEEC
Q 034638 63 WDEGVMGMQVGEVARLRTK 81 (88)
Q Consensus 63 ~~~al~~m~~G~~~~~~ip 81 (88)
...+|..|..|+...+.+.
T Consensus 16 ~kkal~~l~~G~~l~V~~d 34 (69)
T cd03422 16 TLEALPSLKPGEILEVISD 34 (69)
T ss_pred HHHHHHcCCCCCEEEEEec
Confidence 5789999999999888775
No 45
>PRK11536 6-N-hydroxylaminopurine resistance protein; Provisional
Probab=39.12 E-value=33 Score=22.68 Aligned_cols=23 Identities=17% Similarity=0.338 Sum_probs=17.9
Q ss_pred CeEEEEeccCCCCCCCCCCEEEEEEE
Q 034638 2 GIEKQILTPGNGPKPVAGQKVTVHCT 27 (88)
Q Consensus 2 Gv~~~vl~~G~g~~~~~gd~V~i~y~ 27 (88)
|.+++||++|. ++.||.|.+-=.
T Consensus 143 G~Y~RVL~~G~---V~~GD~v~l~~r 165 (223)
T PRK11536 143 GWLYRVIAPGK---VSADAPLELVSR 165 (223)
T ss_pred EEEEEEECCcE---EcCCCEEEEEeC
Confidence 78999998864 688888876544
No 46
>PF04225 OapA: Opacity-associated protein A LysM-like domain; InterPro: IPR007340 This entry includes the Haemophilus influenzae opacity-associated protein. This protein is required for efficient nasopharyngeal mucosal colonization, and its expression is associated with a distinctive transparent colony phenotype. OapA is thought to be a secreted protein, and its expression exhibits high-frequency phase variation [].; PDB: 2GU1_A.
Probab=38.41 E-value=33 Score=18.94 Aligned_cols=20 Identities=5% Similarity=0.205 Sum_probs=11.8
Q ss_pred HHHhcCCCCCcEEEEEECCC
Q 034638 64 DEGVMGMQVGEVARLRTKPS 83 (88)
Q Consensus 64 ~~al~~m~~G~~~~~~ip~~ 83 (88)
...|..++||++..|.+..+
T Consensus 37 ~k~L~~L~pGq~l~f~~d~~ 56 (85)
T PF04225_consen 37 AKPLTRLKPGQTLEFQLDED 56 (85)
T ss_dssp T--GGG--TT-EEEEEE-TT
T ss_pred cchHhhCCCCCEEEEEECCC
Confidence 36789999999999998764
No 47
>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=37.43 E-value=32 Score=22.12 Aligned_cols=21 Identities=5% Similarity=-0.092 Sum_probs=18.8
Q ss_pred CCCccccHHHHhcCCCCCcEE
Q 034638 56 KGSVIKGWDEGVMGMQVGEVA 76 (88)
Q Consensus 56 ~~~~~~g~~~al~~m~~G~~~ 76 (88)
.+++++.|.+++..|++|+..
T Consensus 189 ~~~l~~~~~~a~~~l~~G~is 209 (232)
T TIGR02925 189 AEQLPAEILAVLAKLKPGAPL 209 (232)
T ss_pred hhhCCHHHHHHHHhCCCCCeE
Confidence 467899999999999999976
No 48
>PTZ00053 methionine aminopeptidase 2; Provisional
Probab=36.99 E-value=76 Score=23.42 Aligned_cols=51 Identities=10% Similarity=0.040 Sum_probs=34.3
Q ss_pred CCCCCCCEEEEEEEEEEeCCCceeeEeccCCCCCccEEEEeCCC------CccccHHHHhcCCCCCcE
Q 034638 14 PKPVAGQKVTVHCTGYGKNGDLSQKFWSTKDPGQQPFTFQIGKG------SVIKGWDEGVMGMQVGEV 75 (88)
Q Consensus 14 ~~~~~gd~V~i~y~~~~~~gg~~~~~~~t~~~~~~p~~~~lG~~------~~~~g~~~al~~m~~G~~ 75 (88)
..++.||.|.|++-+.. +| -..|. ..+|.+|.. .+..+.+.||..+++|-+
T Consensus 232 ~vLk~GDvVkID~G~~v-dG---YiaD~-------ArTv~vg~~~~~L~eAv~eA~~aaI~~~kpGv~ 288 (470)
T PTZ00053 232 TVLTYDDVCKLDFGTHV-NG---RIIDC-------AFTVAFNPKYDPLLQATKDATNTGIKEAGIDVR 288 (470)
T ss_pred cEecCCCeEEEEEeEEE-CC---EEEeE-------EEEEEeCHHHHHHHHHHHHHHHHHHHHhcCCCc
Confidence 34899999999998876 66 55554 344445532 134667788888888854
No 49
>PRK08671 methionine aminopeptidase; Provisional
Probab=36.98 E-value=1.3e+02 Score=20.40 Aligned_cols=51 Identities=12% Similarity=0.065 Sum_probs=32.8
Q ss_pred CCCCCCCEEEEEEEEEEeCCCceeeEeccCCCCCccEEEEeCCC--C----ccccHHHHhcCCCCCcE
Q 034638 14 PKPVAGQKVTVHCTGYGKNGDLSQKFWSTKDPGQQPFTFQIGKG--S----VIKGWDEGVMGMQVGEV 75 (88)
Q Consensus 14 ~~~~~gd~V~i~y~~~~~~gg~~~~~~~t~~~~~~p~~~~lG~~--~----~~~g~~~al~~m~~G~~ 75 (88)
..+++||.|.++.-+.. +| =..|. ..++.+|.. . ...+++.++..+++|-+
T Consensus 70 ~~l~~GDvV~iD~G~~~-dG---Y~aD~-------arT~~vG~~~~~l~~a~~~a~~aai~~ikpG~~ 126 (291)
T PRK08671 70 RVFPEGDVVKLDLGAHV-DG---YIADT-------AVTVDLGGKYEDLVEASEEALEAAIEVVRPGVS 126 (291)
T ss_pred cccCCCCEEEEEEeEEE-CC---EEEEE-------EEEEEeChhHHHHHHHHHHHHHHHHHHhcCCCC
Confidence 34889999999987654 55 33332 345556632 1 24667788888888843
No 50
>cd01090 Creatinase Creatine amidinohydrolase. E.C.3.5.3.3. Hydrolyzes creatine to sarcosine and urea.
Probab=35.65 E-value=1.2e+02 Score=19.55 Aligned_cols=51 Identities=14% Similarity=0.111 Sum_probs=32.6
Q ss_pred CCCCCCCEEEEEEEEEEeCCCceeeEeccCCCCCccEEEEeCCC---------CccccHHHHhcCCCCCcE
Q 034638 14 PKPVAGQKVTVHCTGYGKNGDLSQKFWSTKDPGQQPFTFQIGKG---------SVIKGWDEGVMGMQVGEV 75 (88)
Q Consensus 14 ~~~~~gd~V~i~y~~~~~~gg~~~~~~~t~~~~~~p~~~~lG~~---------~~~~g~~~al~~m~~G~~ 75 (88)
..+++||.|.+++.+.. +| =..| -..+|.+|+. .+..+.+.++..+|+|-+
T Consensus 75 r~l~~GD~v~~d~g~~~-~G---Y~ad-------~~RT~~vG~~~~~~~~~~~~~~ea~~~~~~~~rpG~~ 134 (228)
T cd01090 75 RKVQRGDILSLNCFPMI-AG---YYTA-------LERTLFLDEVSDAHLKIWEANVAVHERGLELIKPGAR 134 (228)
T ss_pred cccCCCCEEEEEEeEEE-CC---Eeee-------eEEEEECCCCCHHHHHHHHHHHHHHHHHHHHcCCCCc
Confidence 34799999999988764 55 2222 2445556532 235667778888888854
No 51
>COG1062 AdhC Zn-dependent alcohol dehydrogenases, class III [Energy production and conversion]
Probab=35.59 E-value=85 Score=22.43 Aligned_cols=37 Identities=22% Similarity=0.409 Sum_probs=29.1
Q ss_pred ccEEEEeC--CCCccccHHHHhcCCCCCcEEEEEECCCC
Q 034638 48 QPFTFQIG--KGSVIKGWDEGVMGMQVGEVARLRTKPSS 84 (88)
Q Consensus 48 ~p~~~~lG--~~~~~~g~~~al~~m~~G~~~~~~ip~~~ 84 (88)
.++.+.+| ...++...-+++..+++||.+....-|+-
T Consensus 53 ~~~P~vLGHEgAGiVe~VG~gVt~vkpGDhVI~~f~p~C 91 (366)
T COG1062 53 EGFPAVLGHEGAGIVEAVGEGVTSVKPGDHVILLFTPEC 91 (366)
T ss_pred CCCceecccccccEEEEecCCccccCCCCEEEEcccCCC
Confidence 35777777 34688999999999999999987766553
No 52
>TIGR00496 frr ribosome recycling factor. This model finds only eubacterial proteins. Mitochondrial and/or chloroplast forms might be expected but are not currently known. This protein was previously called ribosome releasing factor. By releasing ribosomes from mRNA at the end of protein biosynthesis, it prevents inappropriate translation from 3-prime regions of the mRNA and frees the ribosome for new rounds of translation. EGAD|53116|YHR038W is part of the frr superfamily.
Probab=34.86 E-value=33 Score=21.72 Aligned_cols=64 Identities=20% Similarity=0.173 Sum_probs=37.5
Q ss_pred CCCCCEEEEEEEEEEeCCCceeeEeccCCCCCccEEEEeCCCCccccHHHHhcCC-------CCCcEEEEEECC
Q 034638 16 PVAGQKVTVHCTGYGKNGDLSQKFWSTKDPGQQPFTFQIGKGSVIKGWDEGVMGM-------QVGEVARLRTKP 82 (88)
Q Consensus 16 ~~~gd~V~i~y~~~~~~gg~~~~~~~t~~~~~~p~~~~lG~~~~~~g~~~al~~m-------~~G~~~~~~ip~ 82 (88)
|..=|.|.|+|-+.... +.++-.-+-. +.+.+.+...+...+..++.||..- .-|...++.+|+
T Consensus 25 p~ild~I~V~~yg~~~p--L~~lA~vsv~-~~~~l~I~p~D~~~~~~I~kAI~~s~lglnP~~dg~~Iri~iP~ 95 (176)
T TIGR00496 25 PSLLDRILVEYYGAPTP--LRQLASVTVP-DARTLVIQPFDKSNINAIEKAIQRSDLGLNPNNDGSVIRVNFPP 95 (176)
T ss_pred HHHhCCeEEEeCCCccc--HHHceeeecC-CCCEEEEecCChhhHHHHHHHHHHCCCCCCcccCCCEEEecCCC
Confidence 56668888887644211 0011111111 2246777777888888888888753 345666777765
No 53
>COG0048 RpsL Ribosomal protein S12 [Translation, ribosomal structure and biogenesis]
Probab=34.46 E-value=83 Score=19.05 Aligned_cols=24 Identities=25% Similarity=0.396 Sum_probs=16.1
Q ss_pred CeEEEEeccCCCCCCCCCCEEEEE
Q 034638 2 GIEKQILTPGNGPKPVAGQKVTVH 25 (88)
Q Consensus 2 Gv~~~vl~~G~g~~~~~gd~V~i~ 25 (88)
|.+..-..+|+|.-+++.|.|.|.
T Consensus 66 G~~VtAyiPg~Gh~lqEH~~Vli~ 89 (129)
T COG0048 66 GKEVTAYIPGEGHNLQEHSEVLIR 89 (129)
T ss_pred CcEEEEEcCCCCccccccCEEEEe
Confidence 344555567777778888877764
No 54
>PRK00083 frr ribosome recycling factor; Reviewed
Probab=33.93 E-value=35 Score=21.82 Aligned_cols=64 Identities=22% Similarity=0.257 Sum_probs=37.7
Q ss_pred CCCCCEEEEEEEEEEeCCCceeeEeccCCCCCccEEEEeCCCCccccHHHHhcCC-------CCCcEEEEEECC
Q 034638 16 PVAGQKVTVHCTGYGKNGDLSQKFWSTKDPGQQPFTFQIGKGSVIKGWDEGVMGM-------QVGEVARLRTKP 82 (88)
Q Consensus 16 ~~~gd~V~i~y~~~~~~gg~~~~~~~t~~~~~~p~~~~lG~~~~~~g~~~al~~m-------~~G~~~~~~ip~ 82 (88)
|..=|.|.|+|-+...- + ..+.+-...+.+.+.+...+...+..++.|+..- ..|...++.+|+
T Consensus 34 p~lld~I~V~~yg~~~p--L-~~lA~Isv~~~~~l~I~p~D~~~i~~I~kAI~~s~lgl~P~~dg~~Iri~iP~ 104 (185)
T PRK00083 34 PSLLDGIKVDYYGSPTP--L-NQVASISVPEARTLLIQPWDKSMLKAIEKAIRASDLGLNPSNDGTVIRLPIPP 104 (185)
T ss_pred HHHcCCeEEEECCCCcc--H-HHceeeecCCCCEEEEEeCCHhHHHHHHHHHHHCCCCCCcccCCCEEEecCCC
Confidence 66668888888543110 0 0011111112246777777778888888888853 345777777775
No 55
>PF11604 CusF_Ec: Copper binding periplasmic protein CusF; InterPro: IPR021647 CusF is a periplasmic protein involved in copper and silver resistance in Escherichia coil. CusF forms a five-stranded beta-barrel OB fold. Cu(I) binds to H36, M47 and M49 which are conserved residues in the protein []. ; PDB: 2L55_A 2VB3_X 1ZEQ_X 2QCP_X 3E6Z_X 2VB2_X.
Probab=33.63 E-value=39 Score=17.88 Aligned_cols=16 Identities=19% Similarity=0.490 Sum_probs=11.2
Q ss_pred HhcCCCCCcEEEEEEC
Q 034638 66 GVMGMQVGEVARLRTK 81 (88)
Q Consensus 66 al~~m~~G~~~~~~ip 81 (88)
.|.++++|+++.|.+-
T Consensus 39 ~l~~l~~Gd~V~F~~~ 54 (70)
T PF11604_consen 39 DLAGLKPGDKVRFTFE 54 (70)
T ss_dssp EESS-STT-EEEEEEE
T ss_pred hhhcCCCCCEEEEEEE
Confidence 4578899999998874
No 56
>cd00520 RRF Ribosome recycling factor (RRF). Ribosome recycling factor dissociates the posttermination complex, composed of the ribosome, deacylated tRNA, and mRNA, after termination of translation. Thus ribosomes are "recycled" and ready for another round of protein synthesis. RRF is believed to bind the ribosome at the A-site in a manner that mimics tRNA, but the specific mechanisms remain unclear. RRF is essential for bacterial growth. It is not necessary for cell growth in archaea or eukaryotes, but is found in mitochondria or chloroplasts of some eukaryotic species.
Probab=31.93 E-value=33 Score=21.71 Aligned_cols=64 Identities=22% Similarity=0.288 Sum_probs=37.0
Q ss_pred CCCCCEEEEEEEEEEeCCCceeeEeccCCCCCccEEEEeCCCCccccHHHHhcCC-------CCCcEEEEEECC
Q 034638 16 PVAGQKVTVHCTGYGKNGDLSQKFWSTKDPGQQPFTFQIGKGSVIKGWDEGVMGM-------QVGEVARLRTKP 82 (88)
Q Consensus 16 ~~~gd~V~i~y~~~~~~gg~~~~~~~t~~~~~~p~~~~lG~~~~~~g~~~al~~m-------~~G~~~~~~ip~ 82 (88)
|..=|.|.|+|-+.... + ..+.+--..+.+.+.+...+..+++.++.|+... ..|...++.+|+
T Consensus 30 p~lld~I~V~~yg~~~p--L-~~lA~Vsv~~~~~l~I~p~D~~~i~~I~kAI~~s~l~l~P~~dg~~iri~iP~ 100 (179)
T cd00520 30 PALLDSITVEYYGAPTP--L-NQLASISVPEPRTIVINPFDKSAIKAIEKAILNSDLGLNPNNDGAVIRVNLPP 100 (179)
T ss_pred HHHhCCeEEEeCCCCcc--H-HHceeeecCCCCEEEEeecchhhHHHHHHHHHHCCCCCCcCcCCCEEEecCCC
Confidence 55557788887643210 0 0011111112246777777788899999999864 345666777765
No 57
>COG2139 RPL21A Ribosomal protein L21E [Translation, ribosomal structure and biogenesis]
Probab=31.76 E-value=61 Score=18.70 Aligned_cols=22 Identities=18% Similarity=0.311 Sum_probs=19.7
Q ss_pred HHHHhcCCCCCcEEEEEECCCC
Q 034638 63 WDEGVMGMQVGEVARLRTKPSS 84 (88)
Q Consensus 63 ~~~al~~m~~G~~~~~~ip~~~ 84 (88)
+...|+.-++||++.|.|.|+.
T Consensus 26 lsr~l~ey~~Gd~V~I~IdpSv 47 (98)
T COG2139 26 LSRYLQEYKVGDKVHIDIDPSV 47 (98)
T ss_pred hhhHHhhccCCCEEEEEeCccc
Confidence 8889999999999999998763
No 58
>PRK15441 peptidyl-prolyl cis-trans isomerase C; Provisional
Probab=31.10 E-value=39 Score=18.68 Aligned_cols=22 Identities=23% Similarity=0.362 Sum_probs=18.5
Q ss_pred CCCccccHHHHhcCCCCCcEEE
Q 034638 56 KGSVIKGWDEGVMGMQVGEVAR 77 (88)
Q Consensus 56 ~~~~~~g~~~al~~m~~G~~~~ 77 (88)
.+.+++.|++++..+++|+...
T Consensus 55 ~~~l~~~f~~a~~~l~~G~vs~ 76 (93)
T PRK15441 55 QGQMVPAFDKVVFSCPVLEPTG 76 (93)
T ss_pred ccccCHHHHHHHHhCCCCCcCC
Confidence 4678889999999999998643
No 59
>TIGR03595 Obg_CgtA_exten Obg family GTPase CgtA, C-terminal extension. CgtA (see model TIGR02729) is a broadly conserved member of the obg family of GTPases associated with ribosome maturation. This model represents a unique C-terminal domain found in some but not all sequences of CgtA. This region is preceded, and may be followed, by a region of low-complexity sequence.
Probab=31.05 E-value=57 Score=17.27 Aligned_cols=18 Identities=22% Similarity=0.543 Sum_probs=13.6
Q ss_pred ccHHHHhc--CCCCCcEEEE
Q 034638 61 KGWDEGVM--GMQVGEVARL 78 (88)
Q Consensus 61 ~g~~~al~--~m~~G~~~~~ 78 (88)
-|++++|. |.+.|+.+.|
T Consensus 43 ~Gv~~~L~~~G~~~GD~V~I 62 (69)
T TIGR03595 43 LGVEDALRKAGAKDGDTVRI 62 (69)
T ss_pred CCHHHHHHHcCCCCCCEEEE
Confidence 46788886 6688888775
No 60
>PF00970 FAD_binding_6: Oxidoreductase FAD-binding domain; InterPro: IPR008333 These sequences contain an oxidoreductase FAD-binding domain. To date, the 3D-structures of the flavoprotein domain of Zea mays (Maize) nitrate reductase [] and of pig NADH:cytochrome b5 reductase [] have been solved. The overall fold is similar to that of ferredoxin:NADP+ reductase []: the FAD-binding domain (N-terminal) has the topology of an anti-parallel beta-barrel, while the NAD(P)-binding domain (C-terminal) has the topology of a classical pyridine dinucleotide-binding fold (i.e. a central parallel beta-sheet flanked by 2 helices on each side).; PDB: 1JB9_A 3LVB_A 3LO8_A 1FRN_A 1FND_A 1BX1_A 1FNC_A 1FNB_A 1BX0_A 1FRQ_A ....
Probab=30.68 E-value=96 Score=16.78 Aligned_cols=59 Identities=19% Similarity=0.193 Sum_probs=36.6
Q ss_pred CCCCCEEEEEEEEEEeCCCceeeEeccC-----CCCCccEEEEeCCCCcccc-HHHHhcCCCCCcEEEEEECC
Q 034638 16 PVAGQKVTVHCTGYGKNGDLSQKFWSTK-----DPGQQPFTFQIGKGSVIKG-WDEGVMGMQVGEVARLRTKP 82 (88)
Q Consensus 16 ~~~gd~V~i~y~~~~~~gg~~~~~~~t~-----~~~~~p~~~~lG~~~~~~g-~~~al~~m~~G~~~~~~ip~ 82 (88)
..+|+.|.++.. .++ ..+...| ......+.|.+- ....| +...|..|++|+++.+.=|.
T Consensus 30 ~~pGQ~v~v~~~---~~~---~~~~R~yS~~s~~~~~~~~~~~ik--~~~~G~~S~~L~~l~~Gd~v~i~gP~ 94 (99)
T PF00970_consen 30 FKPGQFVSVRVP---ING---KQVSRPYSPASSPDDKGYLEFAIK--RYPNGRVSRYLHQLKPGDEVEIRGPY 94 (99)
T ss_dssp STTT-EEEEEEE---ETT---EEEEEEEEBCSSTTSSSEEEEEEE--ECTTSHHHHHHHTSCTTSEEEEEEEE
T ss_pred cCcceEEEEEEc---cCC---cceecceeEeeecCCCCcEEEEEE--eccCCHHHHHHHhCCCCCEEEEEEcc
Confidence 789999999988 234 3222211 111124666662 23333 67788999999999998774
No 61
>PF01206 TusA: Sulfurtransferase TusA; InterPro: IPR001455 SirA functions as a response regulator as part of a two-component system, where BarA is the sensor kinase. This system increases the expression of virulence genes and decreases the expression of motility genes []. BarA phosphorylates SirA, thereby activating the protein. Phosphorylated SirA directly activates virulence expression by interacting with hilA and hilC promoters, while repressing the flagellar regulon indirectly by binding to the csrB promoter, which in turn affects flagellar gene expression. Orthologues of SirA from Salmonella spp. can be found throughout proteobacteria, such as GacA in Psuedomonas spp., VarA in Vibrio cholerae, ExpA in Erwinia carotovora, LetA in Legionella pneumophila, and UvrY in Escherichia coli []. A sensor kinase for SirA is present in each of these organisms as well; the sensor kinase is known as BarA in E. coli and Salmonella spp., but has different names in other genera. In different species, SirA/BarA orthologues are required for virulence gene expression, exoenzyme and antibiotic production, motility, and biofilm formation. The structure of SirA consists of an alpha/beta sandwich with a beta-alpha-beta-alpha-beta(2) fold, comprising a mixed four-stranded beta-sheet stacked against two alpha-helices, both of which are nearly parallel to the strands of the beta-sheet []. Several uncharacterised bacterial proteins (73 to 81 amino-acid residues in length) that contain a well-conserved region in their N-terminal region show structural similarity to the SirA protein, including the E. coli protein YedF (P0AA31 from SWISSPROT), and other members of the UPF0033 family.; GO: 0016783 sulfurtransferase activity, 0008033 tRNA processing, 0005737 cytoplasm; PDB: 3LVJ_D 3LVK_B 1DCJ_A 3HZ7_A 1JDQ_A 1JE3_A 1PAV_A.
Probab=30.40 E-value=62 Score=16.61 Aligned_cols=20 Identities=15% Similarity=0.189 Sum_probs=16.3
Q ss_pred HHHHhcCCCCCcEEEEEECC
Q 034638 63 WDEGVMGMQVGEVARLRTKP 82 (88)
Q Consensus 63 ~~~al~~m~~G~~~~~~ip~ 82 (88)
...+|..|..|+...+.+.-
T Consensus 17 ~~~~l~~l~~G~~l~v~~d~ 36 (70)
T PF01206_consen 17 AKKALKELPPGEVLEVLVDD 36 (70)
T ss_dssp HHHHHHTSGTT-EEEEEESS
T ss_pred HHHHHHhcCCCCEEEEEECC
Confidence 67899999999999988754
No 62
>TIGR00686 phnA alkylphosphonate utilization operon protein PhnA. The protein family includes an uncharacterized member designated phnA in Escherichia coli, part of a large operon associated with alkylphosphonate uptake and carbon-phosphorus bond cleavage. This protein is not related to the characterized phosphonoacetate hydrolase designated PhnA by Kulakova, et al. (2001, 1997).
Probab=29.97 E-value=67 Score=18.91 Aligned_cols=25 Identities=24% Similarity=0.118 Sum_probs=19.1
Q ss_pred EeccCCCCCCCCCCEEEEEEEEEEe
Q 034638 7 ILTPGNGPKPVAGQKVTVHCTGYGK 31 (88)
Q Consensus 7 vl~~G~g~~~~~gd~V~i~y~~~~~ 31 (88)
+++...|...++||.|.+-=.+...
T Consensus 42 ~~kDsnG~~L~dGDsV~liKDLkVK 66 (109)
T TIGR00686 42 IVKDCNGNLLANGDSVILIKDLKVK 66 (109)
T ss_pred eEEcCCCCCccCCCEEEEEeecccc
Confidence 3566778889999999987666653
No 63
>cd03423 SirA SirA (also known as UvrY, and YhhP) belongs to a family of 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 thought 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=29.60 E-value=82 Score=16.32 Aligned_cols=19 Identities=16% Similarity=0.188 Sum_probs=16.7
Q ss_pred HHHHhcCCCCCcEEEEEEC
Q 034638 63 WDEGVMGMQVGEVARLRTK 81 (88)
Q Consensus 63 ~~~al~~m~~G~~~~~~ip 81 (88)
...+|..|..|+...+.+.
T Consensus 16 ~k~~l~~l~~G~~l~V~~d 34 (69)
T cd03423 16 LHKKVRKMKPGDTLLVLAT 34 (69)
T ss_pred HHHHHHcCCCCCEEEEEeC
Confidence 7789999999999888775
No 64
>PRK12450 foldase protein PrsA; Reviewed
Probab=29.50 E-value=34 Score=23.41 Aligned_cols=27 Identities=15% Similarity=0.313 Sum_probs=21.4
Q ss_pred EEeCCCCccccHHHHhcCCCCCcEEEE
Q 034638 52 FQIGKGSVIKGWDEGVMGMQVGEVARL 78 (88)
Q Consensus 52 ~~lG~~~~~~g~~~al~~m~~G~~~~~ 78 (88)
|.-+.++++|.|++|+..|++|+-..+
T Consensus 195 f~~~~~~l~~ef~~aa~~Lk~GevS~~ 221 (309)
T PRK12450 195 FDSGETTLPAEVVRAASGLKEGNRSEI 221 (309)
T ss_pred ccCCCCCCCHHHHHHHHcCCCCCcccc
Confidence 433456799999999999999997643
No 65
>PF03459 TOBE: TOBE domain; InterPro: IPR005116 The TOBE domain [] (Transport-associated OB) always occurs as a dimer as the C-terminal strand of each domain is supplied by the partner. It is probably involved in the recognition of small ligands such as molybdenum (P46930 from SWISSPROT) and sulphate (P16676 from SWISSPROT), and is found in ABC transporters immediately after the ATPase domain.; GO: 0005215 transporter activity, 0005524 ATP binding, 0016820 hydrolase activity, acting on acid anhydrides, catalyzing transmembrane movement of substances, 0006810 transport, 0043190 ATP-binding cassette (ABC) transporter complex; PDB: 1G29_2 1H9M_B 1H9J_A 1H9K_A 1H9R_B 1O7L_C 1H9S_A 1B9N_A 1B9M_A 1GUS_C ....
Probab=29.34 E-value=46 Score=16.65 Aligned_cols=35 Identities=23% Similarity=0.375 Sum_probs=19.8
Q ss_pred cEEEEeCCCC-c---cccHHHHhcCCCCCcEEEEEECCC
Q 034638 49 PFTFQIGKGS-V---IKGWDEGVMGMQVGEVARLRTKPS 83 (88)
Q Consensus 49 p~~~~lG~~~-~---~~g~~~al~~m~~G~~~~~~ip~~ 83 (88)
-..+.++.+. + ++.-...=.++++|+++.+.+.++
T Consensus 22 ~v~~~~~~~~~l~a~it~~~~~~L~L~~G~~V~~~ik~~ 60 (64)
T PF03459_consen 22 EVTLDLGGGETLTARITPESAEELGLKPGDEVYASIKAS 60 (64)
T ss_dssp EEEEEETTSEEEEEEEEHHHHHHCT-STT-EEEEEE-GG
T ss_pred EEEEEECCCCEEEEEEcHHHHHHcCCCCCCEEEEEEehh
Confidence 3444555444 2 334444556799999999998764
No 66
>PRK11018 hypothetical protein; Provisional
Probab=28.96 E-value=73 Score=17.12 Aligned_cols=19 Identities=16% Similarity=0.211 Sum_probs=16.7
Q ss_pred HHHHhcCCCCCcEEEEEEC
Q 034638 63 WDEGVMGMQVGEVARLRTK 81 (88)
Q Consensus 63 ~~~al~~m~~G~~~~~~ip 81 (88)
...+|..|+.|+...|.+-
T Consensus 25 ~kk~l~~l~~G~~L~V~~d 43 (78)
T PRK11018 25 TLEALPQLKKGEILEVVSD 43 (78)
T ss_pred HHHHHHhCCCCCEEEEEeC
Confidence 7789999999999888775
No 67
>COG2258 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=27.91 E-value=62 Score=21.28 Aligned_cols=25 Identities=20% Similarity=0.232 Sum_probs=19.8
Q ss_pred CeEEEEeccCCCCCCCCCCEEEEEEEEE
Q 034638 2 GIEKQILTPGNGPKPVAGQKVTVHCTGY 29 (88)
Q Consensus 2 Gv~~~vl~~G~g~~~~~gd~V~i~y~~~ 29 (88)
|.+++||++|. +..||.+.+-+...
T Consensus 140 G~y~RVL~~G~---v~~gD~l~l~~r~~ 164 (210)
T COG2258 140 GWYARVLEEGK---VRAGDPLKLIPRPS 164 (210)
T ss_pred cEEEEEcccce---ecCCCceEEecCCC
Confidence 68999998764 68888888877664
No 68
>TIGR02993 ectoine_eutD ectoine utilization protein EutD. Members of this family are putative peptidases or hydrolases similar to Xaa-Pro aminopeptidase (pfam00557). They belong to ectoine utilization operons, as found in Sinorhizobium meliloti 1021 (where it is known to be induced by ectoine), Mesorhizobium loti, Silicibacter pomeroyi, Agrobacterium tumefaciens, and Pseudomonas putida. The exact function is unknown.
Probab=27.72 E-value=1.9e+02 Score=20.34 Aligned_cols=50 Identities=18% Similarity=0.229 Sum_probs=32.0
Q ss_pred CCCCCCEEEEEEEEEEeCCCceeeEeccCCCCCccEEEEeCCC---------CccccHHHHhcCCCCCcE
Q 034638 15 KPVAGQKVTVHCTGYGKNGDLSQKFWSTKDPGQQPFTFQIGKG---------SVIKGWDEGVMGMQVGEV 75 (88)
Q Consensus 15 ~~~~gd~V~i~y~~~~~~gg~~~~~~~t~~~~~~p~~~~lG~~---------~~~~g~~~al~~m~~G~~ 75 (88)
.++.||.|.+++.+.. +| |.- .-..+|.+|.. .+..+.+.++..+|+|-.
T Consensus 237 ~l~~gd~v~iD~g~~~-~G---------Y~s-D~tRT~~vG~p~~~~~~~~~~~~~a~~~~i~~ikpG~~ 295 (391)
T TIGR02993 237 PMKVGEGTFFEIAGCY-KR---------YHC-PLSRTVFLGKPTQAFLDAEKAVLEGMEAGLEAAKPGNT 295 (391)
T ss_pred cccCCCEEEEEeeeec-cc---------Ccc-ceeEEEEcCCCCHHHHHHHHHHHHHHHHHHHHcCCCCc
Confidence 3688999998877654 33 221 12556666642 235677788888888854
No 69
>PF03831 PhnA: PhnA protein; InterPro: IPR013988 The PhnA protein family includes the uncharacterised Escherichia coli protein PhnA and its homologues. The E. coli phnA gene is part of a large operon associated with alkylphosphonate uptake and carbon-phosphorus bond cleavage []. The protein is not related to the characterised phosphonoacetate hydrolase designated PhnA []. This entry represents the C-terminal domain of PhnA.; PDB: 2AKK_A 2AKL_A.
Probab=27.67 E-value=29 Score=17.94 Aligned_cols=22 Identities=23% Similarity=0.107 Sum_probs=12.7
Q ss_pred ccCCCCCCCCCCEEEEEEEEEE
Q 034638 9 TPGNGPKPVAGQKVTVHCTGYG 30 (88)
Q Consensus 9 ~~G~g~~~~~gd~V~i~y~~~~ 30 (88)
+...|...+.||.|.+-=.+..
T Consensus 3 ~DsnGn~L~dGDsV~~iKDLkV 24 (56)
T PF03831_consen 3 KDSNGNELQDGDSVTLIKDLKV 24 (56)
T ss_dssp B-TTS-B--TTEEEEESS-EEE
T ss_pred EcCCCCCccCCCEEEEEeeeee
Confidence 4456778999999988666655
No 70
>KOG1546 consensus Metacaspase involved in regulation of apoptosis [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=26.89 E-value=2.4e+02 Score=20.14 Aligned_cols=62 Identities=16% Similarity=0.214 Sum_probs=35.8
Q ss_pred CCCCCEEEEEEEEEEeCCCceeeEeccCCCCCc----cEEEEeCCCCcc--ccHHHHhcCCCCCcEEEEEEC
Q 034638 16 PVAGQKVTVHCTGYGKNGDLSQKFWSTKDPGQQ----PFTFQIGKGSVI--KGWDEGVMGMQVGEVARLRTK 81 (88)
Q Consensus 16 ~~~gd~V~i~y~~~~~~gg~~~~~~~t~~~~~~----p~~~~lG~~~~~--~g~~~al~~m~~G~~~~~~ip 81 (88)
.++||...+||.+.-..- ...++-...++. |..|.. +|.+| .-|++-+.-+..|-+.++++-
T Consensus 135 aq~gD~LvfHYSGHGtr~---~~~~gDe~dG~DE~I~P~D~~t-~G~iIdDe~~r~lV~plp~G~~lt~I~D 202 (362)
T KOG1546|consen 135 AQPGDSLVFHYSGHGTRQ---PDTNGDEVDGYDETIVPCDHNT-QGPIIDDEIFRILVRPLPKGCKLTAISD 202 (362)
T ss_pred CCCCCEEEEEecCCCCcC---CCCCCCCCCCCcceeecccccc-cccccchHHHHHHHhccCCCceEEEEee
Confidence 678999999999872110 001110111111 233321 23444 348899999999999887764
No 71
>PRK04980 hypothetical protein; Provisional
Probab=26.83 E-value=1.2e+02 Score=17.59 Aligned_cols=74 Identities=9% Similarity=0.105 Sum_probs=39.1
Q ss_pred CeEEEEeccCCCCCCCCCCEEEEEEEEEEeCCCceeeEeccCCCCCccEEEE-e------CCCCccccHHHHhcCCCCCc
Q 034638 2 GIEKQILTPGNGPKPVAGQKVTVHCTGYGKNGDLSQKFWSTKDPGQQPFTFQ-I------GKGSVIKGWDEGVMGMQVGE 74 (88)
Q Consensus 2 Gv~~~vl~~G~g~~~~~gd~V~i~y~~~~~~gg~~~~~~~t~~~~~~p~~~~-l------G~~~~~~g~~~al~~m~~G~ 74 (88)
|-...+++.++...+++||.+.+|-- .+| ..|-.-.-..-.|..|. + -+|.-++-|.+.|+.+-+|+
T Consensus 18 GkKTiTiRd~se~~~~~G~~~~V~~~---e~g---~~~c~ieI~sV~~i~f~eLte~hA~qEg~sL~elk~~i~~iYp~~ 91 (102)
T PRK04980 18 GRKTITIRDESESHFKPGDVLRVGTF---EDD---RYFCTIEVLSVSPVTFDELNEKHAEQENMTLPELKQVIAEIYPNL 91 (102)
T ss_pred CCceEEeeCCcccCCCCCCEEEEEEC---CCC---cEEEEEEEEEEEEEehhhCCHHHHHHhCCCHHHHHHHHHHHCCCC
Confidence 44455666666556999999999721 112 21110000000111111 0 11334778999999999987
Q ss_pred EEEEEEC
Q 034638 75 VARLRTK 81 (88)
Q Consensus 75 ~~~~~ip 81 (88)
.....|.
T Consensus 92 ~~lyvI~ 98 (102)
T PRK04980 92 DQLYVIE 98 (102)
T ss_pred ceEEEEE
Confidence 7665553
No 72
>PF13616 Rotamase_3: PPIC-type PPIASE domain; PDB: 3RFW_A 3UI5_A 3UI4_A 1FJD_A 1EQ3_A 1ZK6_A.
Probab=26.74 E-value=34 Score=19.71 Aligned_cols=20 Identities=20% Similarity=0.522 Sum_probs=17.6
Q ss_pred CCCccccHHHHhcCCCCCcE
Q 034638 56 KGSVIKGWDEGVMGMQVGEV 75 (88)
Q Consensus 56 ~~~~~~g~~~al~~m~~G~~ 75 (88)
.+.+.+.|++++..+++|+.
T Consensus 79 ~~~~~~~f~~~~~~l~~G~i 98 (117)
T PF13616_consen 79 PSQLPPEFEEAAFSLKVGEI 98 (117)
T ss_dssp TTSSSCHHHHHHHHS-TTEC
T ss_pred CccccHHHHHHHHcCCCCCC
Confidence 57899999999999999987
No 73
>cd01089 PA2G4-like Related to aminopepdidase M, this family contains proliferation-associated protein 2G4. Family members have been implicated in cell cycle control.
Probab=26.15 E-value=1.9e+02 Score=18.61 Aligned_cols=50 Identities=12% Similarity=0.062 Sum_probs=31.6
Q ss_pred CCCCCCEEEEEEEEEEeCCCceeeEeccCCCCCccEEEEeCCCC-------c-------cccHHHHhcCCCCCcE
Q 034638 15 KPVAGQKVTVHCTGYGKNGDLSQKFWSTKDPGQQPFTFQIGKGS-------V-------IKGWDEGVMGMQVGEV 75 (88)
Q Consensus 15 ~~~~gd~V~i~y~~~~~~gg~~~~~~~t~~~~~~p~~~~lG~~~-------~-------~~g~~~al~~m~~G~~ 75 (88)
.++.||.|.+++-+.. +| =.-| -..+|.+|... . ..+.+.++..+|+|-+
T Consensus 82 ~l~~Gd~v~iD~g~~~-~G---Y~sD-------~tRT~~vG~~~~~~~~~~~~~~~~~~~ea~~~~~~~~kpG~~ 145 (228)
T cd01089 82 TLKDGDVVKIDLGCHI-DG---YIAV-------VAHTIVVGAEAETPVTGKKADVIAAAHYALEAALRLLRPGNQ 145 (228)
T ss_pred ccCCCCEEEEEEEEEE-CC---EEEE-------EEEEEEeCCcCccccchHHHHHHHHHHHHHHHHHHHhCCCCc
Confidence 4789999999987765 55 2222 24445555321 1 3556778888888854
No 74
>cd00291 SirA_YedF_YeeD SirA, YedF, and YeeD. Two-layered alpha/beta sandwich domain. SirA (also known as UvrY, and YhhP) belongs to a family of bacterial 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=25.13 E-value=1.1e+02 Score=15.48 Aligned_cols=20 Identities=15% Similarity=0.195 Sum_probs=16.1
Q ss_pred HHHHhcCCCCCcEEEEEECC
Q 034638 63 WDEGVMGMQVGEVARLRTKP 82 (88)
Q Consensus 63 ~~~al~~m~~G~~~~~~ip~ 82 (88)
..++|..|..|+...+....
T Consensus 16 ~~~~l~~l~~g~~l~v~~d~ 35 (69)
T cd00291 16 TKKALEKLKSGEVLEVLLDD 35 (69)
T ss_pred HHHHHhcCCCCCEEEEEecC
Confidence 66788889999988887753
No 75
>PRK10220 hypothetical protein; Provisional
Probab=25.11 E-value=91 Score=18.42 Aligned_cols=25 Identities=28% Similarity=0.213 Sum_probs=19.0
Q ss_pred EeccCCCCCCCCCCEEEEEEEEEEe
Q 034638 7 ILTPGNGPKPVAGQKVTVHCTGYGK 31 (88)
Q Consensus 7 vl~~G~g~~~~~gd~V~i~y~~~~~ 31 (88)
+++...|...++||.|.+-=.+...
T Consensus 43 ~vkDsnG~~L~dGDsV~viKDLkVK 67 (111)
T PRK10220 43 IVKDANGNLLADGDSVTIVKDLKVK 67 (111)
T ss_pred eEEcCCCCCccCCCEEEEEeecccc
Confidence 3566678889999999987666653
No 76
>TIGR00638 Mop molybdenum-pterin binding domain. This model describes a multigene family of molybdenum-pterin binding proteins of about 70 amino acids in Clostridium pasteurianum, as a tandemly-repeated domain C-terminal to an unrelated domain in ModE, a molybdate transport gene repressor of E. coli, and in single or tandemly paired domains in several related proteins.
Probab=25.08 E-value=87 Score=15.74 Aligned_cols=16 Identities=19% Similarity=0.339 Sum_probs=13.1
Q ss_pred cCCCCCcEEEEEECCC
Q 034638 68 MGMQVGEVARLRTKPS 83 (88)
Q Consensus 68 ~~m~~G~~~~~~ip~~ 83 (88)
.++++|+++.+.++++
T Consensus 47 l~l~~G~~v~~~ik~~ 62 (69)
T TIGR00638 47 LGLKPGKEVYAVIKAP 62 (69)
T ss_pred CCCCCCCEEEEEEECc
Confidence 4668999999999775
No 77
>PF13069 DUF3933: Protein of unknown function (DUF3933)
Probab=24.72 E-value=70 Score=15.81 Aligned_cols=19 Identities=16% Similarity=0.361 Sum_probs=13.9
Q ss_pred cHHH-HhcCCCCCcEEEEEE
Q 034638 62 GWDE-GVMGMQVGEVARLRT 80 (88)
Q Consensus 62 g~~~-al~~m~~G~~~~~~i 80 (88)
++|. .|.+++.|++..++-
T Consensus 26 aiekaellglrtg~ry~vit 45 (53)
T PF13069_consen 26 AIEKAELLGLRTGNRYVVIT 45 (53)
T ss_pred HHHHHHHhccccCCEEEEEE
Confidence 4444 478999999987764
No 78
>PF14444 S1-like: S1-like
Probab=24.68 E-value=82 Score=16.39 Aligned_cols=15 Identities=33% Similarity=0.609 Sum_probs=11.4
Q ss_pred CCCCCCCCCEEEEEE
Q 034638 12 NGPKPVAGQKVTVHC 26 (88)
Q Consensus 12 ~g~~~~~gd~V~i~y 26 (88)
+|..|+.||.|.+.-
T Consensus 30 ~G~~P~vGdrV~v~A 44 (58)
T PF14444_consen 30 KGNVPKVGDRVLVEA 44 (58)
T ss_pred ecCCCccCCEEEEEE
Confidence 366789999988753
No 79
>PRK04405 prsA peptidylprolyl isomerase; Provisional
Probab=24.54 E-value=54 Score=22.37 Aligned_cols=25 Identities=12% Similarity=0.266 Sum_probs=20.1
Q ss_pred EEeCCCCccccHHHHhcCCCCCcEE
Q 034638 52 FQIGKGSVIKGWDEGVMGMQVGEVA 76 (88)
Q Consensus 52 ~~lG~~~~~~g~~~al~~m~~G~~~ 76 (88)
|..+.+.+++.|++++..|++|+..
T Consensus 194 ~~~~~~~l~~~f~~a~~~L~~Geis 218 (298)
T PRK04405 194 FDSTDTTLDSTFKTAAFKLKNGEYT 218 (298)
T ss_pred cccCCCCCCHHHHHHHHcCCCCCcc
Confidence 3334567899999999999999963
No 80
>KOG2738 consensus Putative methionine aminopeptidase [Posttranslational modification, protein turnover, chaperones]
Probab=24.17 E-value=1.4e+02 Score=21.10 Aligned_cols=52 Identities=21% Similarity=0.235 Sum_probs=33.9
Q ss_pred CCCCCCCEEEEEEEEEEeCCCceeeEeccCCCCCccEEEEeCCC-----Cc----cccHHHHhcCCCCCcEE
Q 034638 14 PKPVAGQKVTVHCTGYGKNGDLSQKFWSTKDPGQQPFTFQIGKG-----SV----IKGWDEGVMGMQVGEVA 76 (88)
Q Consensus 14 ~~~~~gd~V~i~y~~~~~~gg~~~~~~~t~~~~~~p~~~~lG~~-----~~----~~g~~~al~~m~~G~~~ 76 (88)
.+.++||.|.|+-+.+. +| |. +.-.-+|-+|+- ++ -+.++.|+.-.|+|.+.
T Consensus 195 RpLedGDIvNiDVtvY~-~G---------yH-GDlneTffvG~Vde~~k~LVkvT~EcL~kaI~~~kpGv~f 255 (369)
T KOG2738|consen 195 RPLEDGDIVNIDVTVYL-NG---------YH-GDLNETFFVGNVDEKAKKLVKVTRECLEKAIAIVKPGVSF 255 (369)
T ss_pred CcCCCCCEEeEEEEEEe-cc---------cc-CccccceEeeccCHHHHHHHHHHHHHHHHHHHHhCCchhH
Confidence 34899999999999997 44 22 122445555531 11 35688888888888653
No 81
>PF15032 DUF4529: Protein of unknown function (DUF4529)
Probab=24.09 E-value=39 Score=24.13 Aligned_cols=18 Identities=44% Similarity=0.929 Sum_probs=13.6
Q ss_pred ccEEEEeCCCCccccHHHHhcCC
Q 034638 48 QPFTFQIGKGSVIKGWDEGVMGM 70 (88)
Q Consensus 48 ~p~~~~lG~~~~~~g~~~al~~m 70 (88)
+...|.+|. |||||++|=
T Consensus 57 ~a~ef~IgT-----GWEEAVqGW 74 (400)
T PF15032_consen 57 RAKEFVIGT-----GWEEAVQGW 74 (400)
T ss_pred ccceeeecc-----cHHHHHhcc
Confidence 467777775 899999863
No 82
>COG3957 Phosphoketolase [Carbohydrate transport and metabolism]
Probab=23.93 E-value=59 Score=25.47 Aligned_cols=25 Identities=16% Similarity=0.230 Sum_probs=22.2
Q ss_pred CccccHHHHhcCCCCCcEEEEEECCC
Q 034638 58 SVIKGWDEGVMGMQVGEVARLRTKPS 83 (88)
Q Consensus 58 ~~~~g~~~al~~m~~G~~~~~~ip~~ 83 (88)
..=|+|.+.+.+|+.+ .+++++||+
T Consensus 542 HQdPgf~~~~~~k~~d-~vRvyfPpD 566 (793)
T COG3957 542 HQDPGFIDHVANKKSD-IVRVYFPPD 566 (793)
T ss_pred cCCchHHHHHHhhccC-ceeEecCCC
Confidence 4569999999999999 999999986
No 83
>COG0298 HypC Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]
Probab=23.86 E-value=1.5e+02 Score=16.59 Aligned_cols=12 Identities=33% Similarity=0.410 Sum_probs=9.7
Q ss_pred CCCCCCEEEEEE
Q 034638 15 KPVAGQKVTVHC 26 (88)
Q Consensus 15 ~~~~gd~V~i~y 26 (88)
.++.||.|.+|-
T Consensus 38 ~v~~GdyVLVHv 49 (82)
T COG0298 38 EVKVGDYVLVHV 49 (82)
T ss_pred ccccCCEEEEEe
Confidence 688899888874
No 84
>PF09269 DUF1967: Domain of unknown function (DUF1967); InterPro: IPR015349 The Obg family comprises a group of ancient P-loop small G proteins (GTPases) belonging to the TRAFAC (for translation factors) class and can be subdivided into several distinct protein subfamilies []. OBG GTPases have been found in both prokaryotes and eukaryotes []. The structure of the OBG GTPase from Thermus thermophilus has been determined []. This entry represents a C-terminal domain found in certain OBG GTPases. This domain contains a four-stranded beta sheet and three alpha helices flanked by an additional beta strand. It is predominantly found in the bacterial GTP-binding protein Obg, and is functionally uncharacterised. ; GO: 0000166 nucleotide binding; PDB: 1UDX_A.
Probab=23.79 E-value=79 Score=16.69 Aligned_cols=18 Identities=22% Similarity=0.547 Sum_probs=10.3
Q ss_pred ccHHHHhc--CCCCCcEEEE
Q 034638 61 KGWDEGVM--GMQVGEVARL 78 (88)
Q Consensus 61 ~g~~~al~--~m~~G~~~~~ 78 (88)
-|++++|. |.+.||.+.|
T Consensus 43 ~Gv~~~L~~~G~~~GD~V~I 62 (69)
T PF09269_consen 43 MGVEKALRKAGAKEGDTVRI 62 (69)
T ss_dssp TTHHHHHHTTT--TT-EEEE
T ss_pred CCHHHHHHHcCCCCCCEEEE
Confidence 46777776 6677887764
No 85
>COG0782 Uncharacterized conserved protein, YhbC family [Function unknown]
Probab=23.62 E-value=95 Score=19.08 Aligned_cols=24 Identities=25% Similarity=0.405 Sum_probs=20.6
Q ss_pred CccccHHHHhcCCCCCcEEEEEEC
Q 034638 58 SVIKGWDEGVMGMQVGEVARLRTK 81 (88)
Q Consensus 58 ~~~~g~~~al~~m~~G~~~~~~ip 81 (88)
++..-+-.||.+.++||.+.+..|
T Consensus 114 S~~SPig~aLlGk~vGd~v~v~~p 137 (151)
T COG0782 114 SVDSPLGRALLGKKVGDTVEVNTP 137 (151)
T ss_pred eccCHHHHHHhCCCCCCEEEEecC
Confidence 345568899999999999999988
No 86
>PF08402 TOBE_2: TOBE domain; InterPro: IPR013611 The TOBE domain [] (Transport-associated OB) always occurs as a dimer as the C-terminal strand of each domain is supplied by the partner. Probably involved in the recognition of small ligands such as molybdenum (e.g. P46930 from SWISSPROT) and sulphate (P16676 from SWISSPROT). Found in ABC transporters immediately after the ATPase domain. A strong RPE motif is found at the presumed N terminus of the domain. ; GO: 0005215 transporter activity, 0005524 ATP binding, 0016820 hydrolase activity, acting on acid anhydrides, catalyzing transmembrane movement of substances, 0006810 transport, 0043190 ATP-binding cassette (ABC) transporter complex; PDB: 1Q12_A 1Q1B_C 2AWN_D 3RLF_B 3PUX_B 2R6G_B 3PUV_B 1Q1E_A 3PV0_B 2AWO_A ....
Probab=22.75 E-value=42 Score=16.92 Aligned_cols=18 Identities=22% Similarity=0.416 Sum_probs=13.3
Q ss_pred cCCCCCcEEEEEECCCCC
Q 034638 68 MGMQVGEVARLRTKPSSS 85 (88)
Q Consensus 68 ~~m~~G~~~~~~ip~~~a 85 (88)
...++|+++.+.++++.+
T Consensus 55 ~~~~~G~~v~l~~~~~~~ 72 (75)
T PF08402_consen 55 SPLEPGDEVRLSWDPDDA 72 (75)
T ss_dssp TT--TTSEEEEEEEGGGE
T ss_pred CCCCCCCEEEEEECcccE
Confidence 578899999999988654
No 87
>PF11195 DUF2829: Protein of unknown function (DUF2829) ; InterPro: IPR021361 This entry is represented by Bacteriophage 16-3, p046. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches.
Probab=22.40 E-value=29 Score=18.76 Aligned_cols=14 Identities=14% Similarity=0.408 Sum_probs=9.9
Q ss_pred HHHHhcCCCCCcEE
Q 034638 63 WDEGVMGMQVGEVA 76 (88)
Q Consensus 63 ~~~al~~m~~G~~~ 76 (88)
|++||..||.|-++
T Consensus 3 F~eAl~alK~Gkkv 16 (75)
T PF11195_consen 3 FGEALEALKQGKKV 16 (75)
T ss_pred HHHHHHHHHcCCCE
Confidence 67777777777554
No 88
>COG1188 Ribosome-associated heat shock protein implicated in the recycling of the 50S subunit (S4 paralog) [Translation, ribosomal structure and biogenesis]
Probab=21.96 E-value=1e+02 Score=17.85 Aligned_cols=18 Identities=11% Similarity=0.056 Sum_probs=14.1
Q ss_pred CCCCCCCEEEEEEEEEEe
Q 034638 14 PKPVAGQKVTVHCTGYGK 31 (88)
Q Consensus 14 ~~~~~gd~V~i~y~~~~~ 31 (88)
..++.||.+.|+|.-+..
T Consensus 47 ~~VK~GD~l~i~~~~~~~ 64 (100)
T COG1188 47 KEVKVGDILTIRFGNKEF 64 (100)
T ss_pred cccCCCCEEEEEeCCcEE
Confidence 348999999999876643
No 89
>PRK05583 ribosomal protein L7Ae family protein; Provisional
Probab=21.95 E-value=57 Score=18.76 Aligned_cols=30 Identities=13% Similarity=0.247 Sum_probs=22.6
Q ss_pred CCCccccHHHHhcCCCCCcEEEEEECCCCC
Q 034638 56 KGSVIKGWDEGVMGMQVGEVARLRTKPSSS 85 (88)
Q Consensus 56 ~~~~~~g~~~al~~m~~G~~~~~~ip~~~a 85 (88)
.+.++-|++..+..++.|.-..+++..+-+
T Consensus 15 AGklv~G~~~v~~aik~gk~~lVI~A~D~s 44 (104)
T PRK05583 15 AGKLLEGYNKCEEAIKKKKVYLIIISNDIS 44 (104)
T ss_pred hCCeeecHHHHHHHHHcCCceEEEEeCCCC
Confidence 467888998888888888776676665543
No 90
>PF00018 SH3_1: SH3 domain; InterPro: IPR001452 SH3 (src Homology-3) domains are small protein modules containing approximately 50 amino acid residues [, ]. They are found in a great variety of intracellular or membrane-associated proteins [, , ] for example, in a variety of proteins with enzymatic activity, in adaptor proteins that lack catalytic sequences and in cytoskeletal proteins, such as fodrin and yeast actin binding protein ABP-1. The SH3 domain has a characteristic fold which consists of five or six beta-strands arranged as two tightly packed anti-parallel beta sheets. The linker regions may contain short helices []. The surface of the SH3-domain bears a flat, hydrophobic ligand-binding pocket which consists of three shallow grooves defined by conservative aromatic residues in which the ligand adopts an extended left-handed helical arrangement. The ligand binds with low affinity but this may be enhanced by multiple interactions. The region bound by the SH3 domain is in all cases proline-rich and contains PXXP as a core-conserved binding motif. The function of the SH3 domain is not well understood but they may mediate many diverse processes such as increasing local concentration of proteins, altering their subcellular location and mediating the assembly of large multiprotein complexes []. The crystal structure of the SH3 domain of the cytoskeletal protein spectrin, and the solution structures of SH3 domains of phospholipase C (PLC-y) and phosphatidylinositol 3-kinase p85 alpha-subunit, have been determined [, , ]. In spite of relatively limited sequence similarity, their overall structures are similar. The domains belong to the alpha+beta structural class, with 5 to 8 beta-strands forming 2 tightly-packed, anti-parallel beta-sheets arranged in a barrel-like structure, and intervening loops sometimes forming helices. Conserved aliphatic and aromatic residues form a hydrophobic core (A11, L23, A29, V34, W42, L52 and V59 in PLC-y []) and a hydrophobic pocket on the molecular surface (L12, F13, W53 and P55 in PLC-y). The conserved core is believed to stabilise the fold, while the pocket is thought to serve as a binding site for target proteins. Conserved carboxylic amino acids located in the loops, on the periphery of the pocket (D14 and E22), may be involved in protein-protein interactions via proline-rich regions. The N- and C-termini are packed in close proximity, indicating that they are independent structural modules.; GO: 0005515 protein binding; PDB: 1UHF_A 1W1F_A 1WA7_A 1SEM_A 1KFZ_A 2SEM_B 1K76_A 3SEM_B 1X2Q_A 2J06_B ....
Probab=21.84 E-value=48 Score=15.72 Aligned_cols=20 Identities=20% Similarity=0.792 Sum_probs=10.4
Q ss_pred cCCCCCcEEEEEECCCCCCCC
Q 034638 68 MGMQVGEVARLRTKPSSSPWW 88 (88)
Q Consensus 68 ~~m~~G~~~~~~ip~~~a~~~ 88 (88)
..+++||...|.=..+. -||
T Consensus 14 Ls~~~Gd~i~v~~~~~~-~Ww 33 (48)
T PF00018_consen 14 LSFKKGDIIEVLEKSDD-GWW 33 (48)
T ss_dssp SEB-TTEEEEEEEESSS-SEE
T ss_pred EeEECCCEEEEEEecCC-CEE
Confidence 34677777766544333 444
No 91
>PRK10413 hydrogenase 2 accessory protein HypG; Provisional
Probab=21.56 E-value=1.6e+02 Score=16.28 Aligned_cols=11 Identities=45% Similarity=0.522 Sum_probs=7.8
Q ss_pred CCCCCEEEEEE
Q 034638 16 PVAGQKVTVHC 26 (88)
Q Consensus 16 ~~~gd~V~i~y 26 (88)
++.||.|.+|-
T Consensus 43 ~~vGDyVLVHa 53 (82)
T PRK10413 43 DLLGQWVLVHV 53 (82)
T ss_pred cccCCEEEEec
Confidence 56777777774
No 92
>COG0233 Frr Ribosome recycling factor [Translation, ribosomal structure and biogenesis]
Probab=21.53 E-value=87 Score=20.26 Aligned_cols=64 Identities=19% Similarity=0.261 Sum_probs=38.1
Q ss_pred CCCCCEEEEEEEEEEeCCCceeeEeccCCCCCccEEEEeCCCCccccHHHHhcC-------CCCCcEEEEEECC
Q 034638 16 PVAGQKVTVHCTGYGKNGDLSQKFWSTKDPGQQPFTFQIGKGSVIKGWDEGVMG-------MQVGEVARLRTKP 82 (88)
Q Consensus 16 ~~~gd~V~i~y~~~~~~gg~~~~~~~t~~~~~~p~~~~lG~~~~~~g~~~al~~-------m~~G~~~~~~ip~ 82 (88)
|.-=|.|.+.|-+...-= .-+.+-...+.+.+.+..-+...+..++.|+.. ...|+..++.+|+
T Consensus 36 p~lld~i~VeyYG~~tPl---~qvAsIsvpe~r~l~I~p~Dks~~~~IekaI~~snLglnP~~dG~~IRv~~P~ 106 (187)
T COG0233 36 PSLLDRITVEYYGSPTPL---NQLASISVPEARTLVIKPFDKSMVKAIEKAILASNLGLNPNNDGNVIRVPLPP 106 (187)
T ss_pred hHHhcceeeeecCCCCcH---HHHhhccCCCcceEEeecCccchHHHHHHHHHHcCCCCCcCcCCCeEEecCCC
Confidence 566678888887764210 111111111223566666677888888888873 3446788888876
No 93
>TIGR00074 hypC_hupF hydrogenase assembly chaperone HypC/HupF. An additional proposed function is to shuttle the iron atom that has been liganded at the HypC/HypD complex to the precursor of the large hydrogenase (HycE) subunit. PubMed:12441107.
Probab=21.17 E-value=98 Score=16.87 Aligned_cols=13 Identities=31% Similarity=0.350 Sum_probs=10.8
Q ss_pred CCCCCCEEEEEEE
Q 034638 15 KPVAGQKVTVHCT 27 (88)
Q Consensus 15 ~~~~gd~V~i~y~ 27 (88)
.++.||.|.+|.-
T Consensus 35 ~~~vGD~VLVH~G 47 (76)
T TIGR00074 35 EVKVGDYVLVHVG 47 (76)
T ss_pred CCCCCCEEEEecC
Confidence 4889999999863
No 94
>PF14250 AbrB-like: AbrB-like transcriptional regulator
Probab=21.10 E-value=1.3e+02 Score=16.31 Aligned_cols=22 Identities=18% Similarity=0.247 Sum_probs=16.9
Q ss_pred cccHHHHhcCCCCCcEEEEEEC
Q 034638 60 IKGWDEGVMGMQVGEVARLRTK 81 (88)
Q Consensus 60 ~~g~~~al~~m~~G~~~~~~ip 81 (88)
+-.=.....+++|||..+|.+-
T Consensus 43 IG~AYT~~m~L~PGdEFeI~Lg 64 (71)
T PF14250_consen 43 IGSAYTKQMGLKPGDEFEIKLG 64 (71)
T ss_pred EcHHHHHHhCCCCCCEEEEEeC
Confidence 4445667789999999998764
No 95
>PRK04175 rpl7ae 50S ribosomal protein L7Ae; Validated
Probab=20.94 E-value=64 Score=19.10 Aligned_cols=31 Identities=19% Similarity=0.287 Sum_probs=25.7
Q ss_pred CCCccccHHHHhcCCCCCcEEEEEECCCCCC
Q 034638 56 KGSVIKGWDEGVMGMQVGEVARLRTKPSSSP 86 (88)
Q Consensus 56 ~~~~~~g~~~al~~m~~G~~~~~~ip~~~a~ 86 (88)
.+.+..|.++.+..++.|....+++..+-.+
T Consensus 28 agklv~G~~~v~kaikkgkakLVilA~D~s~ 58 (122)
T PRK04175 28 TGKIKKGTNETTKAVERGIAKLVVIAEDVDP 58 (122)
T ss_pred cCCEeEcHHHHHHHHHcCCccEEEEeCCCCh
Confidence 4678899999999999998888888776544
No 96
>COG4922 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=20.93 E-value=1.2e+02 Score=18.26 Aligned_cols=44 Identities=25% Similarity=0.250 Sum_probs=25.6
Q ss_pred CCCCCEEEEEEEEEEeCCCceeeEeccCCCCCccEEEEeCCCCccccHHHHh
Q 034638 16 PVAGQKVTVHCTGYGKNGDLSQKFWSTKDPGQQPFTFQIGKGSVIKGWDEGV 67 (88)
Q Consensus 16 ~~~gd~V~i~y~~~~~~gg~~~~~~~t~~~~~~p~~~~lG~~~~~~g~~~al 67 (88)
+..||.|.+||.-+...-| ..-.. -.-.|.+-++...+=|+-+.
T Consensus 71 iadGdLV~vh~hqt~~~pg--~~~~v------~~DtfR~ddgkivEHWDviq 114 (129)
T COG4922 71 IADGDLVTVHYHQTVSEPG--SYTTV------TFDTFRIDDGKIVEHWDVIQ 114 (129)
T ss_pred eccCCEEEEEEeeeeCCCC--cceeE------EEEEEEeeCCceeeccchhh
Confidence 6899999999998864312 11110 12334455556666665555
No 97
>COG2824 PhnA Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]
Probab=20.80 E-value=1e+02 Score=18.14 Aligned_cols=26 Identities=27% Similarity=0.189 Sum_probs=19.4
Q ss_pred EeccCCCCCCCCCCEEEEEEEEEEeC
Q 034638 7 ILTPGNGPKPVAGQKVTVHCTGYGKN 32 (88)
Q Consensus 7 vl~~G~g~~~~~gd~V~i~y~~~~~~ 32 (88)
+++.-.|...++||.|++-=.++...
T Consensus 44 ~v~DsnGn~L~dGDsV~lIKDLkVKG 69 (112)
T COG2824 44 IVKDSNGNLLADGDSVTLIKDLKVKG 69 (112)
T ss_pred EEEcCCCcEeccCCeEEEEEeeeecC
Confidence 45556788899999999877777643
No 98
>PRK07714 hypothetical protein; Provisional
Probab=20.65 E-value=54 Score=18.53 Aligned_cols=30 Identities=17% Similarity=0.156 Sum_probs=22.7
Q ss_pred CCCccccHHHHhcCCCCCcEEEEEECCCCC
Q 034638 56 KGSVIKGWDEGVMGMQVGEVARLRTKPSSS 85 (88)
Q Consensus 56 ~~~~~~g~~~al~~m~~G~~~~~~ip~~~a 85 (88)
.+.++-|.++.+..++.|....+++..+-+
T Consensus 16 aGk~v~G~~~v~~al~~g~~~lViiA~D~s 45 (100)
T PRK07714 16 ARKVISGEELVLKEVRSGKAKLVLLSEDAS 45 (100)
T ss_pred hCCeeecHHHHHHHHHhCCceEEEEeCCCC
Confidence 367788888888888888877777766543
No 99
>COG5569 Uncharacterized conserved protein [Function unknown]
Probab=20.18 E-value=1.2e+02 Score=17.62 Aligned_cols=27 Identities=11% Similarity=0.014 Sum_probs=16.3
Q ss_pred CeEEEEeccCCCCCCCCCCEEEEEEEE
Q 034638 2 GIEKQILTPGNGPKPVAGQKVTVHCTG 28 (88)
Q Consensus 2 Gv~~~vl~~G~g~~~~~gd~V~i~y~~ 28 (88)
-+.+++..+..=...+.||.|.+.+.-
T Consensus 70 TM~F~Vkd~a~lsglKeGdkV~fvfer 96 (108)
T COG5569 70 TMVFRVKDQAKLSGLKEGDKVEFVFER 96 (108)
T ss_pred EEEEEeccHHHhhccccCCcEEEEEEe
Confidence 345555444333347888888877764
No 100
>PRK04306 50S ribosomal protein L21e; Reviewed
Probab=20.14 E-value=1.5e+02 Score=17.04 Aligned_cols=23 Identities=13% Similarity=0.283 Sum_probs=19.9
Q ss_pred ccHHHHhcCCCCCcEEEEEECCC
Q 034638 61 KGWDEGVMGMQVGEVARLRTKPS 83 (88)
Q Consensus 61 ~g~~~al~~m~~G~~~~~~ip~~ 83 (88)
+.+...|+.-++||.+.|.+.|.
T Consensus 26 ~~ls~~l~~y~~Gd~V~I~~d~s 48 (98)
T PRK04306 26 SPLSRALQEFEEGDKVHIVIDPS 48 (98)
T ss_pred CcHHHHHHhccCCCEEEEEecCc
Confidence 34899999999999999999765
No 101
>PRK05261 putative phosphoketolase; Provisional
Probab=20.05 E-value=1.1e+02 Score=24.30 Aligned_cols=26 Identities=19% Similarity=0.253 Sum_probs=23.0
Q ss_pred CCccccHHHHhcCCCCCcEEEEEECCC
Q 034638 57 GSVIKGWDEGVMGMQVGEVARLRTKPS 83 (88)
Q Consensus 57 ~~~~~g~~~al~~m~~G~~~~~~ip~~ 83 (88)
....|||-+.|.+++. +.++++.|++
T Consensus 530 THQ~Pg~ie~l~~~r~-~~~rV~rPaD 555 (785)
T PRK05261 530 SHQDPGFIDHVANKKP-DVIRVYLPPD 555 (785)
T ss_pred CCCCchHHHHHHhcCC-CcceEEeCCC
Confidence 3567999999999998 9999999997
Done!