Query 025696
Match_columns 249
No_of_seqs 132 out of 147
Neff 5.7
Searched_HMMs 46136
Date Fri Mar 29 08:33:15 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/025696.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/025696hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 TIGR00995 3a0901s06TIC22 chlor 100.0 1.5E-65 3.1E-70 462.4 23.3 236 6-243 3-242 (270)
2 PF04278 Tic22: Tic22-like fam 100.0 1.8E-57 3.8E-62 413.1 18.3 234 13-247 3-253 (274)
3 PF04278 Tic22: Tic22-like fam 99.5 1.3E-13 2.7E-18 126.0 9.2 116 52-170 150-273 (274)
4 TIGR00995 3a0901s06TIC22 chlor 99.4 1.1E-12 2.3E-17 119.4 10.0 111 53-171 151-269 (270)
5 PF11360 DUF3110: Protein of u 94.6 0.35 7.6E-06 37.2 8.6 72 84-160 1-77 (86)
6 PF07179 SseB: SseB protein N- 82.7 2.4 5.2E-05 32.8 4.5 43 189-241 54-97 (124)
7 PF11042 DUF2750: Protein of u 82.4 10 0.00022 29.5 8.0 72 81-161 12-88 (104)
8 PF11572 DUF3234: Protein of u 81.0 7.2 0.00016 30.7 6.4 56 82-145 7-65 (103)
9 PF00578 AhpC-TSA: AhpC/TSA fa 66.9 12 0.00027 28.4 4.7 78 81-159 4-89 (124)
10 COG1225 Bcp Peroxiredoxin [Pos 65.6 21 0.00046 30.4 6.2 79 81-163 9-98 (157)
11 PF07179 SseB: SseB protein N- 59.6 76 0.0017 24.2 8.4 65 73-148 17-96 (124)
12 PF10882 bPH_5: Bacterial PH d 55.0 20 0.00043 27.1 3.9 38 84-126 62-99 (100)
13 cd02970 PRX_like2 Peroxiredoxi 53.8 17 0.00036 28.5 3.5 76 82-161 2-89 (149)
14 COG1999 Uncharacterized protei 53.5 58 0.0013 28.5 7.1 87 84-170 49-151 (207)
15 PRK00522 tpx lipid hydroperoxi 53.5 46 0.001 27.6 6.2 75 80-160 22-108 (167)
16 cd02971 PRX_family Peroxiredox 46.8 86 0.0019 24.2 6.5 77 82-162 2-90 (140)
17 COG3691 Uncharacterized protei 45.4 53 0.0011 25.9 4.8 44 104-147 32-78 (98)
18 PF02630 SCO1-SenC: SCO1/SenC; 43.1 69 0.0015 27.0 5.8 65 80-145 30-100 (174)
19 PF02719 Polysacc_synt_2: Poly 40.9 41 0.00089 31.4 4.3 47 91-145 188-234 (293)
20 PF07862 Nif11: Nitrogen fixat 40.7 9.5 0.00021 25.6 0.1 35 111-147 1-35 (49)
21 cd06578 HemD Uroporphyrinogen- 38.5 2.1E+02 0.0045 24.0 8.1 65 107-171 52-116 (239)
22 PRK09437 bcp thioredoxin-depen 35.1 1.2E+02 0.0026 24.2 5.8 77 81-161 9-96 (154)
23 PF07429 Glyco_transf_56: 4-al 33.7 57 0.0012 31.5 4.1 41 179-219 288-329 (360)
24 PF11943 DUF3460: Protein of u 32.9 29 0.00063 25.1 1.5 19 113-131 4-22 (60)
25 cd03017 PRX_BCP Peroxiredoxin 32.8 96 0.0021 24.0 4.8 77 81-161 2-89 (140)
26 cd03018 PRX_AhpE_like Peroxire 32.4 1.6E+02 0.0034 23.1 6.1 80 81-160 6-93 (149)
27 PF04392 ABC_sub_bind: ABC tra 31.8 3.8E+02 0.0082 24.0 9.7 55 74-129 73-130 (294)
28 PRK11611 enhanced serine sensi 30.9 87 0.0019 28.6 4.7 22 193-214 50-71 (246)
29 PF09587 PGA_cap: Bacterial ca 29.5 84 0.0018 27.8 4.3 60 116-186 170-242 (250)
30 PRK09981 hypothetical protein; 27.9 86 0.0019 24.8 3.6 23 104-126 28-50 (99)
31 TIGR00743 conserved hypothetic 27.6 1.8E+02 0.0039 22.8 5.3 52 105-156 30-92 (95)
32 COG1086 Predicted nucleoside-d 27.3 1.7E+02 0.0037 30.1 6.4 80 83-185 428-507 (588)
33 PF00568 WH1: WH1 domain; Int 26.1 1.8E+02 0.004 22.6 5.3 22 105-126 89-110 (111)
34 PF10787 YfmQ: Uncharacterised 25.8 1.4E+02 0.0031 25.2 4.7 35 91-125 91-125 (149)
35 cd00837 EVH1 EVH1 (Enabled, Va 25.5 2.1E+02 0.0045 22.1 5.4 31 93-125 72-102 (104)
36 PF07411 DUF1508: Domain of un 25.4 1.8E+02 0.0039 19.7 4.4 38 83-129 6-43 (49)
37 cd03016 PRX_1cys Peroxiredoxin 25.4 4.3E+02 0.0093 22.6 11.9 77 81-161 4-97 (203)
38 PF11582 DUF3240: Protein of u 24.4 1.1E+02 0.0023 23.9 3.6 67 73-139 17-95 (102)
39 cd02968 SCO SCO (an acronym fo 24.2 95 0.0021 24.1 3.4 79 82-161 2-95 (142)
40 COG0301 ThiI Thiamine biosynth 23.8 2.7E+02 0.0059 27.1 6.9 73 176-248 165-258 (383)
41 PF14483 Cut8_M: Cut8 dimerisa 23.0 40 0.00086 22.0 0.7 23 111-133 10-32 (38)
42 PF00837 T4_deiodinase: Iodoth 22.5 2E+02 0.0044 26.2 5.4 119 82-215 82-236 (237)
43 PF02829 3H: 3H domain; Inter 21.7 4E+02 0.0086 20.8 6.4 53 108-174 41-95 (98)
44 PF08534 Redoxin: Redoxin; In 21.5 2.3E+02 0.0049 22.2 5.1 76 81-159 5-92 (146)
45 COG3603 Uncharacterized conser 21.5 84 0.0018 25.9 2.5 20 80-99 90-109 (128)
46 cd02122 PA_GRAIL_like PA _GRAI 21.2 3.2E+02 0.007 22.3 6.0 52 74-125 78-130 (138)
47 cd03014 PRX_Atyp2cys Peroxired 20.7 1.9E+02 0.0042 22.6 4.5 74 81-160 5-90 (143)
48 smart00461 WH1 WASP homology r 20.6 1.3E+02 0.0027 23.6 3.3 24 103-126 82-105 (106)
49 KOG3671 Actin regulatory prote 20.3 1.5E+02 0.0033 30.0 4.4 48 71-126 91-138 (569)
No 1
>TIGR00995 3a0901s06TIC22 chloroplast protein import component, Tic22 family. Two families of proteins are involved in the chloroplast envelope import appartus.They are the three proteins of the outer membrane (TOC) and four proteins in the inner membrane (TIC). This family is specific for the Tic22 protein.
Probab=100.00 E-value=1.5e-65 Score=462.43 Aligned_cols=236 Identities=63% Similarity=0.876 Sum_probs=209.2
Q ss_pred CCCCCCCcchhhhhHHHHHhhhhhccccccchhhhhhhhcc--CCCCCC-CCCeeeeccc-chhhhhcCChHHHHhhcCC
Q 025696 6 SQVLTNPLLSLSTFIHQNCLRLGSELSSRLDDTKRTLSRRL--QRPPLS-VPPFAFLSQP-KQALAATLSSDFVSKTLAG 81 (249)
Q Consensus 6 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~-~~~fA~~~~~-~~~~a~aL~~~~i~ekL~~ 81 (249)
++..+|||+++|+||||||+|++++|++|+.+|++ +...| -+...+ .+..+..+.. ...+|+|||++||+|+|++
T Consensus 3 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~mksL~r~~~~lgl~~~~~~~s~l~~~~~alAL~e~eV~ekL~~ 81 (270)
T TIGR00995 3 SSFRRNPFLSFSRFIKHKIFVKIKFLLSRLEETKR-TAKTLLRIGATLGTIPTFAIGTWLGTTLQALTLPPEEVAKILAG 81 (270)
T ss_pred CCCCCChhHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHhHhccchHhhhhhhhccccccccCCHHHHHHHhcC
Confidence 35689999999999999999999999999988877 33333 112222 2222222222 2378999999999999999
Q ss_pred CcEEEEEcCCCCeEEEeCCCCCeeEEEEeecHHHHHHHHHHHHHhcccccCCeEEEEEehhHHHhhhcCCeeEEEecCHH
Q 025696 82 TAVYTVSNSSNEFVLISDPNGAKSIGLLCFRQEDAEAFLAQVRLRRKELRSAAKVVPITLDQVYMLKVEGIAFRFLPDPA 161 (249)
Q Consensus 82 VPVF~Vtn~~g~plli~~~~g~~~v~~fF~s~~DAqa~L~qlk~~~P~l~~~~kV~~v~L~~vy~l~~~~~~f~fVP~~~ 161 (249)
||||+|+|++|+||++++++|.+.++.||++++||++||+++|++||++++++||++|+||+||+++.+++.|+|+|+++
T Consensus 82 VPVFtItn~~G~pvl~s~~~~~~~~gvf~s~qedA~afL~~lk~~~p~l~~~~kV~pvsL~~vYkl~~e~l~F~fiP~~~ 161 (270)
T TIGR00995 82 TSVFTVSNAQNEFVLASDNDGEKSIGLLCFRQEDAEAFLAQLRKRKPEVGSQAKVVPITLDQVYKLKVEGIGFRFLPDPA 161 (270)
T ss_pred CceEEEEcCCCCeEEEECCCCCceEEEEECCHHHHHHHHHHHHhhCccccCCceEEEEEHHHHHHHhhcCccEEEeCCHH
Confidence 99999999999999999998877788777777789999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHhhhcccCCCCCceEEeecceeeeeCCeEEeeeeecHHHHHHHHHHHHHhcCCCCCcceEEEEeHHHHHHHhh
Q 025696 162 QIRNALELKAADVRTGFDGVPVFQSELLVVKKKNKRYCPVYFQKEDIEKELSKVSRASRGAGVSQHIMVGSLEDVLKKME 241 (249)
Q Consensus 162 qV~~A~~L~~~~g~~~f~GVPVF~~~~Lti~~~~~~~~PlFF~keDL~~~l~k~~k~~p~~~~~~~I~V~~Le~vi~~m~ 241 (249)
||++|++++ ++++++++|||||++++|||+++|++|||+||+||||+++|+++++++|+.+.+++|+|++||+||++|+
T Consensus 162 qV~~A~~ll-~~~~~~~~GVPlF~~~~Lti~~~n~~~iP~FF~Kedlq~~L~~~kkq~p~l~~~~~I~V~~Le~vi~~m~ 240 (270)
T TIGR00995 162 QIKNALELP-AANSEYFDGVPVFQSGLLVVQKKNERYCPVYFSKEDIEQELSKFKRESPGMADSQVIMVGSMEDVLSKME 240 (270)
T ss_pred HHHHHHHHH-hcCccCCCCccEEeecceEEEeCCeEEEeeEeeHHHHHHHHHHHhHhCcCcCCCccEEEEeHHHHHHHHh
Confidence 999999999 4467889999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cC
Q 025696 242 VP 243 (249)
Q Consensus 242 ~~ 243 (249)
++
T Consensus 241 ~~ 242 (270)
T TIGR00995 241 TS 242 (270)
T ss_pred cc
Confidence 97
No 2
>PF04278 Tic22: Tic22-like family; InterPro: IPR007378 Chloroplast function requires the import of nuclear encoded proteins from the cytoplasm across the chloroplast double membrane. This is accompished by two protein complexes, the Toc complex located at the outer membrane and the Tic complex loacted at the inner membrane []. The Toc complex recognises specific proteins by a cleavable N-terminal sequence and is primarily responsible for translocation through the outer membrane, while the Tic complex translocates the protein through the inner membrane. This entry represents Tic22, a core member of the Tic complex. It is believed to act as a link between both protein complexes, contacting the translocated protein in the intermembrane space after transport through the Toc complex, and directing it to the Tic complex [].; PDB: 4EV1_A.
Probab=100.00 E-value=1.8e-57 Score=413.12 Aligned_cols=234 Identities=44% Similarity=0.632 Sum_probs=140.3
Q ss_pred cchhhhhHHHHHhhhhhccccccchhhhhhhhc-cCCCCCCCCCeeeecccch---hhhhcCChHHHHhhcCCCcEEEEE
Q 025696 13 LLSLSTFIHQNCLRLGSELSSRLDDTKRTLSRR-LQRPPLSVPPFAFLSQPKQ---ALAATLSSDFVSKTLAGTAVYTVS 88 (249)
Q Consensus 13 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~fA~~~~~~~---~~a~aL~~~~i~ekL~~VPVF~Vt 88 (249)
++++++++|+| .|+++++.+++.++.|.-+.. +.+.|+..+.||..+.... .+++||++++|++||++||||+||
T Consensus 3 ~~~~~~~~~~~-~~~~~~~~~~~~~~~r~~~~~~~~~~l~~~~~~a~~~~~~~~~~~~a~AL~~~~V~~kL~~VPVF~it 81 (274)
T PF04278_consen 3 LLSFSNFISNP-LRLGAELASRMKSLIRWSATLGLQGSLGLLPSTALGSSLGSSQPSSALALPEEEVEEKLAGVPVFTIT 81 (274)
T ss_dssp ---------------------------------------------------------------HHHHHHHHTTSEEEEEE
T ss_pred ccccccccccc-ccccccccccccccchhhhccccccccccCCchhcccccccccccccccCCHHHHHHHhcCceEEEEE
Confidence 67899999999 999999999998887754432 3444677788888777543 359999999999999999999999
Q ss_pred cCCCCeEEEeCCCC-CeeEEEEeecHHHHHHHHHHHHHhcccccCCeEEEEEehhHHHhh------hcCCeeEEEecCHH
Q 025696 89 NSSNEFVLISDPNG-AKSIGLLCFRQEDAEAFLAQVRLRRKELRSAAKVVPITLDQVYML------KVEGIAFRFLPDPA 161 (249)
Q Consensus 89 n~~g~plli~~~~g-~~~v~~fF~s~~DAqa~L~qlk~~~P~l~~~~kV~~v~L~~vy~l------~~~~~~f~fVP~~~ 161 (249)
|++|+||+++++++ ++++++||||++||+++|+++++++|++++++||++|+|++||++ +.+++.|+|||+++
T Consensus 82 n~~G~p~l~~~~~~~~~~v~~~F~s~~dA~~~L~~lk~~~p~~~~~~kV~pvsL~~vY~l~~~~~~k~~~~~F~~vP~~~ 161 (274)
T PF04278_consen 82 NSQGEPVLVSGPDQGGKSVGLFFFSQQDAEAFLAQLKKSNPELASGAKVVPVSLGKVYQLAQENKKKPEGLQFRFVPDPK 161 (274)
T ss_dssp -TT--B-----TTS--SEEEEEES-HHHHHHHHHHHHH-SSHHHTT-EEEEEEHHHHHHHHHHTTT-TT-EEEEEE--HH
T ss_pred CCCCCEEEeccCCCCCceEEEEEecHHHHHHHHHHHhhhCccccCceEEEEecHHHHHHHHHHhhcCCcCceEEEcCCHH
Confidence 99999999999973 679999999999999999999999999999999999999999999 56789999999999
Q ss_pred HHHHHHHHhhhccc--CCCCCceEEeecc----eeeeeCCeEEeeeeecHHHHHHHHHHHHHhcCCCCCcceEEEEeHHH
Q 025696 162 QIRNALELKAADVR--TGFDGVPVFQSEL----LVVKKKNKRYCPVYFQKEDIEKELSKVSRASRGAGVSQHIMVGSLED 235 (249)
Q Consensus 162 qV~~A~~L~~~~g~--~~f~GVPVF~~~~----Lti~~~~~~~~PlFF~keDL~~~l~k~~k~~p~~~~~~~I~V~~Le~ 235 (249)
||++|+++++.+|+ ++|+||||||+++ |+++++|++++|+||+||||+++|+++++++|+++.+++|+|++|++
T Consensus 162 qV~~A~~ll~~~g~~~~~f~GVPvF~~~~~~~~Lti~~~~~~~iPlFF~kedL~~~l~k~~kq~p~~~~~~~I~V~~Le~ 241 (274)
T PF04278_consen 162 QVEAALELLKKQGQKVKQFQGVPVFYAEGGKGYLTIKQDNKRIIPLFFDKEDLQAALEKAKKQQPDLAKEPKIQVVSLED 241 (274)
T ss_dssp HHHHHHHHHHTTT---S---S-EEEEEESST-B-EETTTTEEEEEEESSHHHHHHHHHHHTTT-TT-----EEEEEEHHH
T ss_pred HHHHHHHHHHhcCCCcccCCCeEEEEEcCCCceEEEeeCCeEEEEEEecHHHHHHHHHHHHHhCCCCcCCceEEEEcHHH
Confidence 99999999998887 5799999999888 99999999999999999999999999999999999999999999999
Q ss_pred HHHHhhcCCcCC
Q 025696 236 VLKKMEVPCLNV 247 (249)
Q Consensus 236 vi~~m~~~~~~~ 247 (249)
||++|++++++.
T Consensus 242 vI~~m~~~~d~~ 253 (274)
T PF04278_consen 242 VIKTMEESDDSD 253 (274)
T ss_dssp HHHHHHH---GG
T ss_pred HHHHHhcCCCCC
Confidence 999999998664
No 3
>PF04278 Tic22: Tic22-like family; InterPro: IPR007378 Chloroplast function requires the import of nuclear encoded proteins from the cytoplasm across the chloroplast double membrane. This is accompished by two protein complexes, the Toc complex located at the outer membrane and the Tic complex loacted at the inner membrane []. The Toc complex recognises specific proteins by a cleavable N-terminal sequence and is primarily responsible for translocation through the outer membrane, while the Tic complex translocates the protein through the inner membrane. This entry represents Tic22, a core member of the Tic complex. It is believed to act as a link between both protein complexes, contacting the translocated protein in the intermembrane space after transport through the Toc complex, and directing it to the Tic complex [].; PDB: 4EV1_A.
Probab=99.48 E-value=1.3e-13 Score=125.99 Aligned_cols=116 Identities=23% Similarity=0.350 Sum_probs=80.7
Q ss_pred CCCCeeeecccch-hhhhcCChH--HHHhhcCCCcEEEEEcCCCCeEEEeCCCCCeeEEEEeecHHHHHHHHHHHHHhcc
Q 025696 52 SVPPFAFLSQPKQ-ALAATLSSD--FVSKTLAGTAVYTVSNSSNEFVLISDPNGAKSIGLLCFRQEDAEAFLAQVRLRRK 128 (249)
Q Consensus 52 ~~~~fA~~~~~~~-~~a~aL~~~--~i~ekL~~VPVF~Vtn~~g~plli~~~~g~~~v~~fF~s~~DAqa~L~qlk~~~P 128 (249)
....|+++|.+++ ..|+.|..+ +-.+.+.|||||.+.+.+ .+|++. ++++.++++||+++|+++.++++++++|
T Consensus 150 ~~~~F~~vP~~~qV~~A~~ll~~~g~~~~~f~GVPvF~~~~~~-~~Lti~--~~~~~~iPlFF~kedL~~~l~k~~kq~p 226 (274)
T PF04278_consen 150 EGLQFRFVPDPKQVEAALELLKKQGQKVKQFQGVPVFYAEGGK-GYLTIK--QDNKRIIPLFFDKEDLQAALEKAKKQQP 226 (274)
T ss_dssp T-EEEEEE--HHHHHHHHHHHHTTT---S---S-EEEEEESST--B-EET--TTTEEEEEEESSHHHHHHHHHHHTTT-T
T ss_pred cCceEEEcCCHHHHHHHHHHHHhcCCCcccCCCeEEEEEcCCC-ceEEEe--eCCeEEEEEEecHHHHHHHHHHHHHhCC
Confidence 5689999999987 778888333 444889999999999999 777774 3457899999999999999999999999
Q ss_pred cccCCeEEEEEehhHHHhh--hcCC---eeEEEecCHHHHHHHHHHh
Q 025696 129 ELRSAAKVVPITLDQVYML--KVEG---IAFRFLPDPAQIRNALELK 170 (249)
Q Consensus 129 ~l~~~~kV~~v~L~~vy~l--~~~~---~~f~fVP~~~qV~~A~~L~ 170 (249)
+++.+.+|.+++|+.+++. ..++ -.+.|||+.+.+++++++.
T Consensus 227 ~~~~~~~I~V~~Le~vI~~m~~~~d~~~~~i~fiP~~es~~~i~~~~ 273 (274)
T PF04278_consen 227 DLAKEPKIQVVSLEDVIKTMEESDDSDLKKIVFIPPGESLEFIQSLK 273 (274)
T ss_dssp T-----EEEEEEHHHHHHHHHH---GGGGGEEEE--HHHHHHHHTS-
T ss_pred CCcCCceEEEEcHHHHHHHHhcCCCCCcceEEEECCHHHHHHHHHhc
Confidence 9999999999999999987 2222 6899999999999997653
No 4
>TIGR00995 3a0901s06TIC22 chloroplast protein import component, Tic22 family. Two families of proteins are involved in the chloroplast envelope import appartus.They are the three proteins of the outer membrane (TOC) and four proteins in the inner membrane (TIC). This family is specific for the Tic22 protein.
Probab=99.41 E-value=1.1e-12 Score=119.36 Aligned_cols=111 Identities=18% Similarity=0.261 Sum_probs=93.4
Q ss_pred CCCeeeecccch-hhhhcCChHHHHhhcCCCcEEEEEcCCCCeEEEeCCCCCeeEEEEeecHHHHHHHHHHHHHhccccc
Q 025696 53 VPPFAFLSQPKQ-ALAATLSSDFVSKTLAGTAVYTVSNSSNEFVLISDPNGAKSIGLLCFRQEDAEAFLAQVRLRRKELR 131 (249)
Q Consensus 53 ~~~fA~~~~~~~-~~a~aL~~~~i~ekL~~VPVF~Vtn~~g~plli~~~~g~~~v~~fF~s~~DAqa~L~qlk~~~P~l~ 131 (249)
.+.|+++|.+++ ..|+.|... -.+...|||||.+ ++|++.. +++.++||||+++|++++|+++|+++|+++
T Consensus 151 ~l~F~fiP~~~qV~~A~~ll~~-~~~~~~GVPlF~~-----~~Lti~~--~n~~~iP~FF~Kedlq~~L~~~kkq~p~l~ 222 (270)
T TIGR00995 151 GIGFRFLPDPAQIKNALELPAA-NSEYFDGVPVFQS-----GLLVVQK--KNERYCPVYFSKEDIEQELSKFKRESPGMA 222 (270)
T ss_pred CccEEEeCCHHHHHHHHHHHhc-CccCCCCccEEee-----cceEEEe--CCeEEEeeEeeHHHHHHHHHHHhHhCcCcC
Confidence 499999999987 777777622 3455579999999 7778843 356899999999999999999999999999
Q ss_pred CCeEEEEEehhHHHhh-hc---CC---eeEEEecCHHHHHHHHHHhh
Q 025696 132 SAAKVVPITLDQVYML-KV---EG---IAFRFLPDPAQIRNALELKA 171 (249)
Q Consensus 132 ~~~kV~~v~L~~vy~l-~~---~~---~~f~fVP~~~qV~~A~~L~~ 171 (249)
.+.+|.+++|+.+++. .. ++ -.+.|+|+++.+++++++.+
T Consensus 223 ~~~~I~V~~Le~vi~~m~~~~~~~~~~~~I~l~Ps~e~~~~iq~~~~ 269 (270)
T TIGR00995 223 DSQVIMVGSMEDVLSKMETSEKDSGWEDQIFIPPGQEAIQHMQSLIA 269 (270)
T ss_pred CCccEEEEeHHHHHHHHhccCCCCcccceEEECCCHHHHHHHHHHhc
Confidence 9999999999999977 22 22 68889999999999998754
No 5
>PF11360 DUF3110: Protein of unknown function (DUF3110); InterPro: IPR021503 This family of proteins has no known function.
Probab=94.59 E-value=0.35 Score=37.21 Aligned_cols=72 Identities=15% Similarity=0.324 Sum_probs=56.0
Q ss_pred EEEEE----cCCCCeEEEeCCCCCeeEEEEeecHHHHHHHHHHHHHhcccccCCeEEEEEehhHHHhh-hcCCeeEEEec
Q 025696 84 VYTVS----NSSNEFVLISDPNGAKSIGLLCFRQEDAEAFLAQVRLRRKELRSAAKVVPITLDQVYML-KVEGIAFRFLP 158 (249)
Q Consensus 84 VF~Vt----n~~g~plli~~~~g~~~v~~fF~s~~DAqa~L~qlk~~~P~l~~~~kV~~v~L~~vy~l-~~~~~~f~fVP 158 (249)
||+++ +.+++...++..+ +.+.++|=+.+||+.|...|..+.- ....|..+..+.+..+ ++.|..+++||
T Consensus 1 v~VL~f~~~~~~eGI~si~~~~--~~~Vl~FE~edDA~RYa~lLEAqd~---~~p~Ve~id~~~i~~fC~~~gy~~~iv~ 75 (86)
T PF11360_consen 1 VYVLLFNAGTETEGIYSIQNKD--RNVVLMFEDEDDAERYAGLLEAQDF---PDPTVEEIDPEEIEEFCRSAGYEYEIVP 75 (86)
T ss_pred CEEEEecCCCCCCcEEEEEeCC--CCEEEEEccHHHHHHHHHHHHhcCC---CCCCeEEECHHHHHHHHHHCCceEEEEC
Confidence 56777 3444667776554 5688999999999999999987542 2348999999999999 67789999998
Q ss_pred CH
Q 025696 159 DP 160 (249)
Q Consensus 159 ~~ 160 (249)
.-
T Consensus 76 ~g 77 (86)
T PF11360_consen 76 PG 77 (86)
T ss_pred CC
Confidence 64
No 6
>PF07179 SseB: SseB protein N-terminal domain; InterPro: IPR009839 This family consists of several SseB proteins, which appear to be found exclusively in Enterobacteria. SseB is known to enhance serine-sensitivity in Escherichia coli [] and is part of the Salmonella pathogenicity island 2 (SPI-2) translocon [].
Probab=82.72 E-value=2.4 Score=32.77 Aligned_cols=43 Identities=30% Similarity=0.507 Sum_probs=34.6
Q ss_pred eeee-eCCeEEeeeeecHHHHHHHHHHHHHhcCCCCCcceEEEEeHHHHHHHhh
Q 025696 189 LVVK-KKNKRYCPVYFQKEDIEKELSKVSRASRGAGVSQHIMVGSLEDVLKKME 241 (249)
Q Consensus 189 Lti~-~~~~~~~PlFF~keDL~~~l~k~~k~~p~~~~~~~I~V~~Le~vi~~m~ 241 (249)
.+++ .+|++++|+|-+.+.+.+... . ...+.+++..++++.+.
T Consensus 54 ~~~~~~dg~~~lpvFTs~e~l~~~~~----~------~~~~~~~~~~~l~~~~~ 97 (124)
T PF07179_consen 54 LTLEDPDGERYLPVFTSWEELEKWYP----D------ERPIIVVPFEDLLEMLL 97 (124)
T ss_pred EEEEcCCCCEEEEEECCHHHHHhhhc----c------cCceecccHHHHHHHhh
Confidence 3444 688999999999999998866 1 24578889999999987
No 7
>PF11042 DUF2750: Protein of unknown function (DUF2750); InterPro: IPR021284 This family is conserved in Proteobacteria. The function is not known.
Probab=82.42 E-value=10 Score=29.52 Aligned_cols=72 Identities=22% Similarity=0.337 Sum_probs=53.5
Q ss_pred CCcEEEEEcCCCCeEEEeCCCCCeeEEEEeecHHHHHHHHHHHHHhcccccCCeEEEEEehhHHHh-----hhcCCeeEE
Q 025696 81 GTAVYTVSNSSNEFVLISDPNGAKSIGLLCFRQEDAEAFLAQVRLRRKELRSAAKVVPITLDQVYM-----LKVEGIAFR 155 (249)
Q Consensus 81 ~VPVF~Vtn~~g~plli~~~~g~~~v~~fF~s~~DAqa~L~qlk~~~P~l~~~~kV~~v~L~~vy~-----l~~~~~~f~ 155 (249)
.==||++.+.+| .++....++. .+.+|+=+++-|++.... -.++.++..++|+.-.+ |..+++..-
T Consensus 12 ~e~vw~L~~~~g-~~~~~~~~~~-~~~p~W~~~~~A~~~~~~-------ew~~~~~~~I~L~~Fle~wl~~L~~d~~~vg 82 (104)
T PF11042_consen 12 SEEVWGLKDEDG-WVLCDSDEGE-DVLPFWPSKEFAEACATD-------EWADYKPKEISLDEFLEEWLPGLQEDGVLVG 82 (104)
T ss_pred CCEEEEEEcCCc-EEEeecCCCc-EEEEeCCCHHHHHHHHhc-------ccccCeEEEEEHHHHHHHHhHhHHHCCCEEE
Confidence 345899999999 7777666544 479999999999997654 14568999999999886 356766666
Q ss_pred EecCHH
Q 025696 156 FLPDPA 161 (249)
Q Consensus 156 fVP~~~ 161 (249)
+-|+..
T Consensus 83 v~~~~~ 88 (104)
T PF11042_consen 83 VFPNPD 88 (104)
T ss_pred EecCCC
Confidence 666543
No 8
>PF11572 DUF3234: Protein of unknown function (DUF3234); InterPro: IPR021628 This bacterial family of proteins has no known function. Some members in this family of proteins are annotated as TTHA0547 however this cannot be confirmed. ; PDB: 2Z0R_J.
Probab=81.02 E-value=7.2 Score=30.71 Aligned_cols=56 Identities=25% Similarity=0.472 Sum_probs=42.2
Q ss_pred CcEEEEEcCCCCeEEEeCCCCCeeEEEEeecHHHHHHHHHHHHHhcccccCCeEEEEE---ehhHHH
Q 025696 82 TAVYTVSNSSNEFVLISDPNGAKSIGLLCFRQEDAEAFLAQVRLRRKELRSAAKVVPI---TLDQVY 145 (249)
Q Consensus 82 VPVF~Vtn~~g~plli~~~~g~~~v~~fF~s~~DAqa~L~qlk~~~P~l~~~~kV~~v---~L~~vy 145 (249)
=|=|++.|..|+-++...- |. ....++.|.++|++|+++ +|++ +.+|.++ .|.++|
T Consensus 7 g~WYVLe~~pGEHLvleal-gq-rls~iWtS~~~A~~F~~~----~p~~--GM~V~~Le~~aLKeaf 65 (103)
T PF11572_consen 7 GTWYVLEDEPGEHLVLEAL-GQ-RLSGIWTSRELAQAFLAR----HPEL--GMRVSPLESWALKEAF 65 (103)
T ss_dssp SSEEEEESSTT-BEEEEET-TE-EEEEEBSSHHHHHHHHHT----STSS----EEEEE-SHHHHHHH
T ss_pred cceEEecCCCCceeeHHHH-hh-hHHhheecHHHHHHHHHh----Cccc--CcEeecchhHHHHHHH
Confidence 4679999999999998654 33 488899999999999976 6874 6888887 356666
No 9
>PF00578 AhpC-TSA: AhpC/TSA family; InterPro: IPR000866 Peroxiredoxins (Prxs) are a ubiquitous family of antioxidant enzymes that also control cytokine-induced peroxide levels which mediate signal transduction in mammalian cells. Prxs can be regulated by changes to phosphorylation, redox and possibly oligomerisation states. Prxs are divided into three classes: typical 2-Cys Prxs; atypical 2-Cys Prxs; and 1-Cys Prxs. All Prxs share the same basic catalytic mechanism, in which an active-site cysteine (the peroxidatic cysteine) is oxidised to a sulphenic acid by the peroxide substrate. The recycling of the sulphenic acid back to a thiol is what distinguishes the three enzyme classes. Using crystal structures, a detailed catalytic cycle has been derived for typical 2-Cys Prxs, including a model for the redox-regulated oligomeric state proposed to control enzyme activity []. Alkyl hydroperoxide reductase (AhpC) is responsible for directly reducing organic hyperoxides in its reduced dithiol form. Thiol specific antioxidant (TSA) is a physiologically important antioxidant which constitutes an enzymatic defence against sulphur-containing radicals. This family contains AhpC and TSA, as well as related proteins.; GO: 0016209 antioxidant activity, 0016491 oxidoreductase activity, 0055114 oxidation-reduction process; PDB: 1QMV_A 1PRX_B 3HJP_C 3HA9_A 2V41_G 2V32_C 2V2G_C 3LWA_A 3IA1_B 1ZYE_G ....
Probab=66.90 E-value=12 Score=28.39 Aligned_cols=78 Identities=24% Similarity=0.345 Sum_probs=52.1
Q ss_pred CCcEEEEEcCCCCeEEEeCCCCCeeEEEEeecH---HHHHHHHHHHHHhccccc-CCeEEEEEehhHHHhhh----cCCe
Q 025696 81 GTAVYTVSNSSNEFVLISDPNGAKSIGLLCFRQ---EDAEAFLAQVRLRRKELR-SAAKVVPITLDQVYMLK----VEGI 152 (249)
Q Consensus 81 ~VPVF~Vtn~~g~plli~~~~g~~~v~~fF~s~---~DAqa~L~qlk~~~P~l~-~~~kV~~v~L~~vy~l~----~~~~ 152 (249)
.+|-|.++|.+|..+..+.-.| +.+..+|++- ....+.+.++.+...++. .+++|..|+.+...+++ ..++
T Consensus 4 ~~P~f~l~~~~g~~~~l~~l~g-k~~vl~f~~~~~c~~c~~~l~~l~~~~~~~~~~~~~vi~is~d~~~~~~~~~~~~~~ 82 (124)
T PF00578_consen 4 KAPDFTLTDSDGKTVSLSDLKG-KPVVLFFWPTAWCPFCQAELPELNELYKKYKDKGVQVIGISTDDPEEIKQFLEEYGL 82 (124)
T ss_dssp BGGCEEEETTTSEEEEGGGGTT-SEEEEEEESTTTSHHHHHHHHHHHHHHHHHHTTTEEEEEEESSSHHHHHHHHHHHTC
T ss_pred CCCCcEeECCCCCEEEHHHHCC-CcEEEEEeCccCccccccchhHHHHHhhhhccceEEeeecccccccchhhhhhhhcc
Confidence 4799999999999988876655 4455556544 344444444444333332 47999999998887663 3457
Q ss_pred eEEEecC
Q 025696 153 AFRFLPD 159 (249)
Q Consensus 153 ~f~fVP~ 159 (249)
.|.++-|
T Consensus 83 ~~~~~~D 89 (124)
T PF00578_consen 83 PFPVLSD 89 (124)
T ss_dssp SSEEEEE
T ss_pred ccccccC
Confidence 7777776
No 10
>COG1225 Bcp Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]
Probab=65.59 E-value=21 Score=30.37 Aligned_cols=79 Identities=22% Similarity=0.265 Sum_probs=60.4
Q ss_pred CCcEEEEEcCCCCeEEEeCCCCCeeEEEEee-------cHHHHHHHHHHHHHhcccccCCeEEEEEehhHHHhhh----c
Q 025696 81 GTAVYTVSNSSNEFVLISDPNGAKSIGLLCF-------RQEDAEAFLAQVRLRRKELRSAAKVVPITLDQVYMLK----V 149 (249)
Q Consensus 81 ~VPVF~Vtn~~g~plli~~~~g~~~v~~fF~-------s~~DAqa~L~qlk~~~P~l~~~~kV~~v~L~~vy~l~----~ 149 (249)
..|=|.+.|.+|+.+..++-.|. .|.++|+ +-.+|.+|=+.+.+-+ ..++.|.-||-|.+..++ +
T Consensus 9 ~aPdF~Lp~~~g~~v~Lsd~~Gk-~VVLyFYPk~~TpgCT~Ea~~Frd~~~ef~---~~~a~V~GIS~Ds~~~~~~F~~k 84 (157)
T COG1225 9 KAPDFELPDQDGETVSLSDLRGK-PVVLYFYPKDFTPGCTTEACDFRDLLEEFE---KLGAVVLGISPDSPKSHKKFAEK 84 (157)
T ss_pred cCCCeEeecCCCCEEehHHhcCC-cEEEEECCCCCCCcchHHHHHHHHHHHHHH---hCCCEEEEEeCCCHHHHHHHHHH
Confidence 47999999999999888888776 5665665 4457877766654421 136899999999999994 5
Q ss_pred CCeeEEEecCHHHH
Q 025696 150 EGIAFRFLPDPAQI 163 (249)
Q Consensus 150 ~~~~f~fVP~~~qV 163 (249)
.++.|.|+.|...-
T Consensus 85 ~~L~f~LLSD~~~~ 98 (157)
T COG1225 85 HGLTFPLLSDEDGE 98 (157)
T ss_pred hCCCceeeECCcHH
Confidence 78999999998543
No 11
>PF07179 SseB: SseB protein N-terminal domain; InterPro: IPR009839 This family consists of several SseB proteins, which appear to be found exclusively in Enterobacteria. SseB is known to enhance serine-sensitivity in Escherichia coli [] and is part of the Salmonella pathogenicity island 2 (SPI-2) translocon [].
Probab=59.61 E-value=76 Score=24.16 Aligned_cols=65 Identities=12% Similarity=0.283 Sum_probs=46.4
Q ss_pred HHHHhhcCCCcEEEEEcCCCC---------------eEEEeCCCCCeeEEEEeecHHHHHHHHHHHHHhcccccCCeEEE
Q 025696 73 DFVSKTLAGTAVYTVSNSSNE---------------FVLISDPNGAKSIGLLCFRQEDAEAFLAQVRLRRKELRSAAKVV 137 (249)
Q Consensus 73 ~~i~ekL~~VPVF~Vtn~~g~---------------plli~~~~g~~~v~~fF~s~~DAqa~L~qlk~~~P~l~~~~kV~ 137 (249)
..+.+.|..--+|+.+...+. +.+++.++|. ...++|.|.+...++.. ....+.
T Consensus 17 ~~~~~~L~~a~~lvpv~~~~~~~~~~~~~~~~~~~~~~~~~~~dg~-~~lpvFTs~e~l~~~~~----------~~~~~~ 85 (124)
T PF07179_consen 17 EAFLEALLKAEVLVPVDVDDDDEGGEIEFDDDSEIQFLTLEDPDGE-RYLPVFTSWEELEKWYP----------DERPII 85 (124)
T ss_pred HHHHHHHhhCeEEEEEecccccccccccccCCCcceeEEEEcCCCC-EEEEEECCHHHHHhhhc----------ccCcee
Confidence 366666766666666654443 4777767665 69999999999988877 234577
Q ss_pred EEehhHHHhhh
Q 025696 138 PITLDQVYMLK 148 (249)
Q Consensus 138 ~v~L~~vy~l~ 148 (249)
.++...++++-
T Consensus 86 ~~~~~~l~~~~ 96 (124)
T PF07179_consen 86 VVPFEDLLEML 96 (124)
T ss_pred cccHHHHHHHh
Confidence 88888888774
No 12
>PF10882 bPH_5: Bacterial PH domain; InterPro: IPR020482 This entry contains membrane proteins with no known function.
Probab=55.03 E-value=20 Score=27.11 Aligned_cols=38 Identities=21% Similarity=0.386 Sum_probs=28.2
Q ss_pred EEEEEcCCCCeEEEeCCCCCeeEEEEeecHHHHHHHHHHHHHh
Q 025696 84 VYTVSNSSNEFVLISDPNGAKSIGLLCFRQEDAEAFLAQVRLR 126 (249)
Q Consensus 84 VF~Vtn~~g~plli~~~~g~~~v~~fF~s~~DAqa~L~qlk~~ 126 (249)
+++.++.....+++...+ . .++++++|.+.|+++++++
T Consensus 62 ~~~y~t~~~~~i~I~t~~-~----~y~isp~~~~~fi~~l~~r 99 (100)
T PF10882_consen 62 VRLYATRNKNVILIKTKD-K----TYVISPEDPEEFIEALKKR 99 (100)
T ss_pred EEEEEECCCCEEEEEECC-c----eEEEcCCCHHHHHHHHHhc
Confidence 555555577777786654 2 2578999999999999875
No 13
>cd02970 PRX_like2 Peroxiredoxin (PRX)-like 2 family; hypothetical proteins that show sequence similarity to PRXs. Members of this group contain a CXXC motif, similar to TRX. The second cysteine in the motif corresponds to the peroxidatic cysteine of PRX, however, these proteins do not contain the other two residues of the catalytic triad of PRX. PRXs confer a protective antioxidant role in cells through their peroxidase activity in which hydrogen peroxide, peroxynitrate, and organic hydroperoxides are reduced and detoxified using reducing equivalents derived from either thioredoxin, glutathione, trypanothione and AhpF. TRXs alter the redox state of target proteins by catalyzing the reduction of their disulfide bonds via the CXXC motif using reducing equivalents derived from either NADPH or ferredoxins.
Probab=53.84 E-value=17 Score=28.54 Aligned_cols=76 Identities=18% Similarity=0.232 Sum_probs=45.7
Q ss_pred CcEEEEEcCCCCeEEEeCCCCCeeEEEEee-------cHHHHHHHHHHHHHhcccc-cCCeEEEEEehhHHHhh----hc
Q 025696 82 TAVYTVSNSSNEFVLISDPNGAKSIGLLCF-------RQEDAEAFLAQVRLRRKEL-RSAAKVVPITLDQVYML----KV 149 (249)
Q Consensus 82 VPVF~Vtn~~g~plli~~~~g~~~v~~fF~-------s~~DAqa~L~qlk~~~P~l-~~~~kV~~v~L~~vy~l----~~ 149 (249)
.|-|++++.+|..+..+.-.+.+.+..+|+ +++++.. +.+...+. ..+++|..|+.+....+ +.
T Consensus 2 ~p~f~l~~~~g~~~~l~~~~~~~~~vl~f~~~~~Cp~C~~~~~~----l~~~~~~~~~~~v~vv~V~~~~~~~~~~~~~~ 77 (149)
T cd02970 2 APDFELPDAGGETVTLSALLGEGPVVVVFYRGFGCPFCREYLRA----LSKLLPELDALGVELVAVGPESPEKLEAFDKG 77 (149)
T ss_pred CCCccccCCCCCEEchHHHhcCCCEEEEEECCCCChhHHHHHHH----HHHHHHHHHhcCeEEEEEeCCCHHHHHHHHHh
Confidence 588999999998887754322233444554 3443333 33322233 24689999998776655 23
Q ss_pred CCeeEEEecCHH
Q 025696 150 EGIAFRFLPDPA 161 (249)
Q Consensus 150 ~~~~f~fVP~~~ 161 (249)
.++.|.++-|+.
T Consensus 78 ~~~~~p~~~D~~ 89 (149)
T cd02970 78 KFLPFPVYADPD 89 (149)
T ss_pred cCCCCeEEECCc
Confidence 567777777754
No 14
>COG1999 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]
Probab=53.53 E-value=58 Score=28.50 Aligned_cols=87 Identities=15% Similarity=0.135 Sum_probs=50.9
Q ss_pred EEEEEcCCCCeEEEeCCCCCeeEEEEee------cHHHHHHHHHHHHHhcccccCCeEEEEEehhHHHhh----h---c-
Q 025696 84 VYTVSNSSNEFVLISDPNGAKSIGLLCF------RQEDAEAFLAQVRLRRKELRSAAKVVPITLDQVYML----K---V- 149 (249)
Q Consensus 84 VF~Vtn~~g~plli~~~~g~~~v~~fF~------s~~DAqa~L~qlk~~~P~l~~~~kV~~v~L~~vy~l----~---~- 149 (249)
-|.++|.+|+++....-.|.-.+..|.+ ++..-..+.+-+++-....+.+++|..|++|=-.-. + .
T Consensus 49 ~f~l~d~~G~~~~~~~l~Gk~~lv~FgyT~CpdVCP~~l~~l~~~~~~l~~~~~~~v~vv~itvDPerDtp~~lk~Y~~~ 128 (207)
T COG1999 49 DFELTDQDGKPFTLKDLKGKPSLVFFGYTHCPDVCPTTLAELKALLKKLGEGEGDDVQVVFITVDPERDTPEVLKKYAEL 128 (207)
T ss_pred ceeeecCCCCEeeccccCCCEEEEEeecCCCCccChHHHHHHHHHHHHhccccCCCEEEEEEEECCCCCCHHHHHHHhcc
Confidence 5899999999999877777544443332 444444344444443324466789999998644322 1 1
Q ss_pred -CCeeEE-EecCHHHHHHHHHHh
Q 025696 150 -EGIAFR-FLPDPAQIRNALELK 170 (249)
Q Consensus 150 -~~~~f~-fVP~~~qV~~A~~L~ 170 (249)
-...|. +-.+.++++.+-+-.
T Consensus 129 ~~~~~~~~ltg~~~~~~~~~k~~ 151 (207)
T COG1999 129 NFDPRWIGLTGTPEQIEEVAKAY 151 (207)
T ss_pred cCCCCeeeeeCCHHHHHHHHHHh
Confidence 112222 444577777755544
No 15
>PRK00522 tpx lipid hydroperoxide peroxidase; Provisional
Probab=53.46 E-value=46 Score=27.65 Aligned_cols=75 Identities=23% Similarity=0.200 Sum_probs=48.9
Q ss_pred CCCcEEEEEcCCCCeEEEeCCCCCeeEEEEee-------cHHHHHHHHHHHHHhcccccCCeEEEEEehhHHHhhh----
Q 025696 80 AGTAVYTVSNSSNEFVLISDPNGAKSIGLLCF-------RQEDAEAFLAQVRLRRKELRSAAKVVPITLDQVYMLK---- 148 (249)
Q Consensus 80 ~~VPVF~Vtn~~g~plli~~~~g~~~v~~fF~-------s~~DAqa~L~qlk~~~P~l~~~~kV~~v~L~~vy~l~---- 148 (249)
...|-|++.+.+|..+..+.-.|. .+..+|+ +..++-++-+ +.. +. .+++|..|+.|..+.++
T Consensus 22 ~~~P~f~l~~~~g~~v~l~~~~Gk-~vvl~f~~s~~cp~C~~e~~~l~~-~~~---~~-~~~~vv~vs~D~~~~~~~f~~ 95 (167)
T PRK00522 22 DKAPDFTLVANDLSDVSLADFAGK-RKVLNIFPSIDTGVCATSVRKFNQ-EAA---EL-DNTVVLCISADLPFAQKRFCG 95 (167)
T ss_pred CCCCCeEEEcCCCcEEehHHhCCC-EEEEEEEcCCCCCccHHHHHHHHH-HHH---Hc-CCcEEEEEeCCCHHHHHHHHH
Confidence 357999999999988877665554 3444444 4555544433 333 22 36899999999887663
Q ss_pred cCCee-EEEecCH
Q 025696 149 VEGIA-FRFLPDP 160 (249)
Q Consensus 149 ~~~~~-f~fVP~~ 160 (249)
..++. |.++.|.
T Consensus 96 ~~~~~~~~~lsD~ 108 (167)
T PRK00522 96 AEGLENVITLSDF 108 (167)
T ss_pred hCCCCCceEeecC
Confidence 34564 7888874
No 16
>cd02971 PRX_family Peroxiredoxin (PRX) family; composed of the different classes of PRXs including many proteins originally known as bacterioferritin comigratory proteins (BCP), based on their electrophoretic mobility before their function was identified. PRXs are thiol-specific antioxidant (TSA) proteins also known as TRX peroxidases and alkyl hydroperoxide reductase C22 (AhpC) proteins. They confer a protective antioxidant role in cells through their peroxidase activity in which hydrogen peroxide, peroxynitrate, and organic hydroperoxides are reduced and detoxified using reducing equivalents derived from either TRX, glutathione, trypanothione and AhpF. They are distinct from other peroxidases in that they have no cofactors such as metals or prosthetic groups. The first step of catalysis, common to all PRXs, is the nucleophilic attack by the catalytic cysteine (also known as the peroxidatic cysteine) on the peroxide leading to cleavage of the oxygen-oxygen bond and the formation of a
Probab=46.83 E-value=86 Score=24.24 Aligned_cols=77 Identities=23% Similarity=0.355 Sum_probs=47.5
Q ss_pred CcEEEEEcCCCCeEEEeCCCCCeeEEEEee-------cHHHHHHHHHHHHHhcccccCCeEEEEEehhHHHhhh----cC
Q 025696 82 TAVYTVSNSSNEFVLISDPNGAKSIGLLCF-------RQEDAEAFLAQVRLRRKELRSAAKVVPITLDQVYMLK----VE 150 (249)
Q Consensus 82 VPVF~Vtn~~g~plli~~~~g~~~v~~fF~-------s~~DAqa~L~qlk~~~P~l~~~~kV~~v~L~~vy~l~----~~ 150 (249)
+|-|.+.|.+|..+..+.-.|. .+..+|+ +..++..+.+-..+- . ..++.|..|+.+..-.++ ..
T Consensus 2 ~p~f~l~~~~g~~~~l~~~~gk-~~ll~f~~~~~c~~C~~~~~~l~~~~~~~-~--~~~~~~i~is~d~~~~~~~~~~~~ 77 (140)
T cd02971 2 APDFTLPATDGGEVSLSDFKGK-WVVLFFYPKDFTPVCTTELCAFRDLAEEF-A--KGGAEVLGVSVDSPFSHKAWAEKE 77 (140)
T ss_pred CCCceeccCCCcEEehHHhCCC-eEEEEEeCCCCCCcCHHHHHHHHHHHHHH-H--HCCCEEEEEeCCCHHHHHHHHhcc
Confidence 5889999999998887664444 3444444 344433333222221 1 246889999997665542 33
Q ss_pred -CeeEEEecCHHH
Q 025696 151 -GIAFRFLPDPAQ 162 (249)
Q Consensus 151 -~~~f~fVP~~~q 162 (249)
+..|.++-|...
T Consensus 78 ~~~~~~~l~D~~~ 90 (140)
T cd02971 78 GGLNFPLLSDPDG 90 (140)
T ss_pred cCCCceEEECCCh
Confidence 678888887654
No 17
>COG3691 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=45.39 E-value=53 Score=25.92 Aligned_cols=44 Identities=14% Similarity=0.118 Sum_probs=30.0
Q ss_pred eeEEEEeecHHHHHHHHHHHHHhcccccC---CeEEEEEehhHHHhh
Q 025696 104 KSIGLLCFRQEDAEAFLAQVRLRRKELRS---AAKVVPITLDQVYML 147 (249)
Q Consensus 104 ~~v~~fF~s~~DAqa~L~qlk~~~P~l~~---~~kV~~v~L~~vy~l 147 (249)
..+-.||=++.+|+++|+.+.+.-...-+ .+.-....+++.++|
T Consensus 32 ~~~s~~~as~a~ae~~La~lt~kAr~veSepc~I~~ei~~vedgv~L 78 (98)
T COG3691 32 AEYSRFFATRAEAEEALAALTEKARAVESEPCEIEYEITDVEDGVEL 78 (98)
T ss_pred EEEEEEecCHHHHHHHHHHHHHHHHhhccCcceeeeeeEeccCcEEE
Confidence 45889999999999999998875333223 344444555556666
No 18
>PF02630 SCO1-SenC: SCO1/SenC; InterPro: IPR003782 This family is involved in biogenesis of respiratory and photosynthetic systems. In yeast the SCO1 protein is specifically required for a post-translational step in the accumulation of subunits 1 and 2 of cytochrome c oxidase (COXI and COX-II) []. It is a mitochondrion-associated cytochrome c oxidase assembly factor. The purple nonsulphur photosynthetic eubacterium Rhodobacter capsulatus is a versatile organism that can obtain cellular energy by several means, including the capture of light energy for photosynthesis as well as the use of light-independent respiration, in which molecular oxygen serves as a terminal electron acceptor. The SenC protein is required for optimal cytochrome c oxidase activity in aerobically grown R. capsulatus cells and is involved in the induction of structural polypeptides of the light-harvesting and reaction centre complexes [].; PDB: 2K6V_A 3ME8_A 3ME7_A 2GT6_A 2GQL_A 2GQK_A 2GGT_B 1WP0_C 2HRN_A 2GQM_A ....
Probab=43.10 E-value=69 Score=26.96 Aligned_cols=65 Identities=15% Similarity=0.179 Sum_probs=36.2
Q ss_pred CCCcEEEEEcCCCCeEEEeCCCCCeeEEEEee------cHHHHHHHHHHHHHhcccccCCeEEEEEehhHHH
Q 025696 80 AGTAVYTVSNSSNEFVLISDPNGAKSIGLLCF------RQEDAEAFLAQVRLRRKELRSAAKVVPITLDQVY 145 (249)
Q Consensus 80 ~~VPVF~Vtn~~g~plli~~~~g~~~v~~fF~------s~~DAqa~L~qlk~~~P~l~~~~kV~~v~L~~vy 145 (249)
..+|-|.++|.+|..+....-+|.-.+..|++ ++.-... +.++.++=.+.+.++++.-|++|=-+
T Consensus 30 ~~~~~f~L~d~~G~~~~~~~~~Gk~~lv~F~yT~CpdvCp~~l~~-l~~~~~~l~~~~~~v~~v~ISvDP~~ 100 (174)
T PF02630_consen 30 RIVPDFTLTDQDGKTVTLDDLKGKWVLVFFGYTRCPDVCPTTLAN-LSQLQKQLGEEGKDVQFVFISVDPER 100 (174)
T ss_dssp CSSST-EEEETTSSEEEGGGGTTSEEEEEEE-TTSSSHHHHHHHH-HHHHHHHHHHTTTTEEEEEEESSTTT
T ss_pred ccCCCcEEEcCCCCEecHHHhCCCeEEEEEEEcCCCccCHHHHHH-HHHHHHHhhhccCceEEEEEEeCCCC
Confidence 45778999999999998765566543443333 2222222 22222211111457899999986443
No 19
>PF02719 Polysacc_synt_2: Polysaccharide biosynthesis protein; InterPro: IPR003869 This domain is found in diverse bacterial polysaccharide biosynthesis proteins including the CapD protein from Staphylococcus aureus [], the WalL protein, mannosyl-transferase [], and several putative epimerases. The CapD protein is required for biosynthesis of type 1 capsular polysaccharide.; GO: 0009058 biosynthetic process; PDB: 3PVZ_C 2GN8_B 2GN4_A 2GNA_B 2GN6_A 2GN9_A.
Probab=40.90 E-value=41 Score=31.44 Aligned_cols=47 Identities=11% Similarity=0.227 Sum_probs=28.2
Q ss_pred CCCeEEEeCCCCCeeEEEEeecHHHHHHHHHHHHHhcccccCCeEEEEEehhHHH
Q 025696 91 SNEFVLISDPNGAKSIGLLCFRQEDAEAFLAQVRLRRKELRSAAKVVPITLDQVY 145 (249)
Q Consensus 91 ~g~plli~~~~g~~~v~~fF~s~~DAqa~L~qlk~~~P~l~~~~kV~~v~L~~vy 145 (249)
+|.||++++++ +..|||+.+||-.++-+--.. +.+..|....||+.+
T Consensus 188 ~g~PlTvT~p~----mtRffmti~EAv~Lvl~a~~~----~~~geifvl~mg~~v 234 (293)
T PF02719_consen 188 NGGPLTVTDPD----MTRFFMTIEEAVQLVLQAAAL----AKGGEIFVLDMGEPV 234 (293)
T ss_dssp TTSSEEECETT-----EEEEE-HHHHHHHHHHHHHH------TTEEEEE---TCE
T ss_pred cCCcceeCCCC----cEEEEecHHHHHHHHHHHHhh----CCCCcEEEecCCCCc
Confidence 56788887764 788999999999988765542 334556555554443
No 20
>PF07862 Nif11: Nitrogen fixation protein of unknown function; InterPro: IPR012903 This domain is found in the cyanobacteria, and the nitrogen-fixing proteobacterium Azotobacter vinelandii and may be involved in nitrogen fixation, but no role has been assigned [].
Probab=40.69 E-value=9.5 Score=25.57 Aligned_cols=35 Identities=31% Similarity=0.393 Sum_probs=25.0
Q ss_pred ecHHHHHHHHHHHHHhcccccCCeEEEEEehhHHHhh
Q 025696 111 FRQEDAEAFLAQVRLRRKELRSAAKVVPITLDQVYML 147 (249)
Q Consensus 111 ~s~~DAqa~L~qlk~~~P~l~~~~kV~~v~L~~vy~l 147 (249)
||.+++++|++.++ .+|+++.+++- +-+.+.+..+
T Consensus 1 MS~~~l~~Fl~~~~-~d~~l~~~l~~-~~~~~e~~~l 35 (49)
T PF07862_consen 1 MSIESLKAFLEKVK-SDPELREQLKA-CQNPEEVVAL 35 (49)
T ss_pred CCHHHHHHHHHHHh-cCHHHHHHHHh-cCCHHHHHHH
Confidence 78999999999995 56887765543 2266666665
No 21
>cd06578 HemD Uroporphyrinogen-III synthase (HemD) catalyzes the asymmetrical cyclization of tetrapyrrole (linear) to uroporphyrinogen-III, the fourth step in the biosynthesis of heme. This ubiquitous enzyme is present in eukaryotes, bacteria and archaea. Mutations in the human uroporphyrinogen-III synthase gene cause congenital erythropoietic porphyria, a recessive inborn error of metabolism also known as Gunther disease.
Probab=38.48 E-value=2.1e+02 Score=23.98 Aligned_cols=65 Identities=18% Similarity=0.255 Sum_probs=47.5
Q ss_pred EEEeecHHHHHHHHHHHHHhcccccCCeEEEEEehhHHHhhhcCCeeEEEecCHHHHHHHHHHhh
Q 025696 107 GLLCFRQEDAEAFLAQVRLRRKELRSAAKVVPITLDQVYMLKVEGIAFRFLPDPAQIRNALELKA 171 (249)
Q Consensus 107 ~~fF~s~~DAqa~L~qlk~~~P~l~~~~kV~~v~L~~vy~l~~~~~~f~fVP~~~qV~~A~~L~~ 171 (249)
..+|+|+.-++.+.+.++...+....+.++.+|+=..+-.++..|..-.++|+....+...+++.
T Consensus 52 ~iiftS~~av~~~~~~~~~~~~~~~~~~~~~avG~~Ta~~l~~~g~~~~~~~~~~~~~~L~~~i~ 116 (239)
T cd06578 52 WLIFTSPNAVEAFFEALEELGLRALAGLKIAAVGPKTAEALREAGLTADFVPEEGDSEGLLELLE 116 (239)
T ss_pred EEEEECHHHHHHHHHHHHhhCCccccCCEEEEECHHHHHHHHHcCCCceeCCCccCHHHHHHHHH
Confidence 46899999999999999876555556788888887777777777766666666555555444443
No 22
>PRK09437 bcp thioredoxin-dependent thiol peroxidase; Reviewed
Probab=35.09 E-value=1.2e+02 Score=24.20 Aligned_cols=77 Identities=18% Similarity=0.233 Sum_probs=47.5
Q ss_pred CCcEEEEEcCCCCeEEEeCCCCCeeEEEEee-------cHHHHHHHHHHHHHhcccccCCeEEEEEehhHHHhhh----c
Q 025696 81 GTAVYTVSNSSNEFVLISDPNGAKSIGLLCF-------RQEDAEAFLAQVRLRRKELRSAAKVVPITLDQVYMLK----V 149 (249)
Q Consensus 81 ~VPVF~Vtn~~g~plli~~~~g~~~v~~fF~-------s~~DAqa~L~qlk~~~P~l~~~~kV~~v~L~~vy~l~----~ 149 (249)
..|-|.++|.+|+.+..+.-.|.. +..+|+ +......+ +++.++.- .++++|..|+.+...+++ .
T Consensus 9 ~~p~f~l~~~~G~~~~l~~~~gk~-~ll~f~~~~~~p~C~~~~~~l-~~~~~~~~--~~~v~vi~Is~d~~~~~~~~~~~ 84 (154)
T PRK09437 9 IAPKFSLPDQDGEQVSLTDFQGQR-VLVYFYPKAMTPGCTVQACGL-RDNMDELK--KAGVVVLGISTDKPEKLSRFAEK 84 (154)
T ss_pred cCCCcEeeCCCCCEEeHHHhCCCC-EEEEEECCCCCCchHHHHHHH-HHHHHHHH--HCCCEEEEEcCCCHHHHHHHHHH
Confidence 468899999999887775545543 333443 34433332 33333211 246899999998776663 4
Q ss_pred CCeeEEEecCHH
Q 025696 150 EGIAFRFLPDPA 161 (249)
Q Consensus 150 ~~~~f~fVP~~~ 161 (249)
.++.|.++-+..
T Consensus 85 ~~~~~~~l~D~~ 96 (154)
T PRK09437 85 ELLNFTLLSDED 96 (154)
T ss_pred hCCCCeEEECCC
Confidence 577888887643
No 23
>PF07429 Glyco_transf_56: 4-alpha-L-fucosyltransferase glycosyl transferase group 56; InterPro: IPR009993 This family contains the bacterial enzyme 4-alpha-L-fucosyltransferase (Fuc4NAc transferase) (approximately 360 residues long). This catalyses the synthesis of Fuc4NAc-ManNAcA-GlcNAc-PP-Und (lipid III) as part of the biosynthetic pathway of enterobacterial common antigen (ECA), a polysaccharide comprised of the trisaccharide repeat unit Fuc4NAc-ManNAcA-GlcNAc [].; GO: 0008417 fucosyltransferase activity, 0009246 enterobacterial common antigen biosynthetic process, 0009276 Gram-negative-bacterium-type cell wall
Probab=33.75 E-value=57 Score=31.46 Aligned_cols=41 Identities=20% Similarity=0.272 Sum_probs=28.9
Q ss_pred CCceEEeecceeeeeC-CeEEeeeeecHHHHHHHHHHHHHhc
Q 025696 179 DGVPVFQSELLVVKKK-NKRYCPVYFQKEDIEKELSKVSRAS 219 (249)
Q Consensus 179 ~GVPVF~~~~Lti~~~-~~~~~PlFF~keDL~~~l~k~~k~~ 219 (249)
-|+|||.++.-+.-++ .+.-+|+||.-++|+..+-+-.++|
T Consensus 288 ~G~~v~L~~~np~~~~l~~~~ipVlf~~d~L~~~~v~ea~rq 329 (360)
T PF07429_consen 288 LGKKVFLSRDNPFWQDLKEQGIPVLFYGDELDEALVREAQRQ 329 (360)
T ss_pred cCCeEEEecCChHHHHHHhCCCeEEeccccCCHHHHHHHHHH
Confidence 4999999776665332 3447899999999887765554444
No 24
>PF11943 DUF3460: Protein of unknown function (DUF3460); InterPro: IPR021853 This family of proteins are functionally uncharacterised. This protein is found in bacteria. Proteins in this family are about 70 amino acids in length. This protein has a conserved WDK sequence motif.
Probab=32.90 E-value=29 Score=25.10 Aligned_cols=19 Identities=32% Similarity=0.560 Sum_probs=16.6
Q ss_pred HHHHHHHHHHHHHhccccc
Q 025696 113 QEDAEAFLAQVRLRRKELR 131 (249)
Q Consensus 113 ~~DAqa~L~qlk~~~P~l~ 131 (249)
+.|+..||+++|.++|++.
T Consensus 4 ~Se~TqFl~~lk~~~Pele 22 (60)
T PF11943_consen 4 QSEITQFLNQLKAKHPELE 22 (60)
T ss_pred cCHHHHHHHHHHHhCCchH
Confidence 5689999999999999854
No 25
>cd03017 PRX_BCP Peroxiredoxin (PRX) family, Bacterioferritin comigratory protein (BCP) subfamily; composed of thioredoxin-dependent thiol peroxidases, widely expressed in pathogenic bacteria, that protect cells against toxicity from reactive oxygen species by reducing and detoxifying hydroperoxides. The protein was named BCP based on its electrophoretic mobility before its function was known. BCP shows substrate selectivity toward fatty acid hydroperoxides rather than hydrogen peroxide or alkyl hydroperoxides. BCP contains the peroxidatic cysteine but appears not to possess a resolving cysteine (some sequences, not all, contain a second cysteine but its role is still unknown). Unlike other PRXs, BCP exists as a monomer. The plant homolog of BCP is PRX Q, which is expressed only in leaves and is cellularly localized in the chloroplasts and the guard cells of stomata. Also included in this subfamily is the fungal nuclear protein, Dot5p (for disrupter of telomere silencing protein 5), w
Probab=32.78 E-value=96 Score=24.01 Aligned_cols=77 Identities=25% Similarity=0.342 Sum_probs=47.6
Q ss_pred CCcEEEEEcCCCCeEEEeCCCCCeeEEEEee-------cHHHHHHHHHHHHHhcccccCCeEEEEEehhHHHhhh----c
Q 025696 81 GTAVYTVSNSSNEFVLISDPNGAKSIGLLCF-------RQEDAEAFLAQVRLRRKELRSAAKVVPITLDQVYMLK----V 149 (249)
Q Consensus 81 ~VPVF~Vtn~~g~plli~~~~g~~~v~~fF~-------s~~DAqa~L~qlk~~~P~l~~~~kV~~v~L~~vy~l~----~ 149 (249)
..|=|.+++.+|..+..+.-.|. .+..+|+ +......+ +++..+-.+ +++.|..|+.+..-+++ .
T Consensus 2 ~~p~f~l~~~~g~~~~l~~~~gk-~~ll~f~~~~~cp~C~~~~~~l-~~~~~~~~~--~~~~vv~is~d~~~~~~~~~~~ 77 (140)
T cd03017 2 KAPDFTLPDQDGETVSLSDLRGK-PVVLYFYPKDDTPGCTKEACDF-RDLYEEFKA--LGAVVIGVSPDSVESHAKFAEK 77 (140)
T ss_pred CCCCccccCCCCCEEeHHHhCCC-cEEEEEeCCCCCCchHHHHHHH-HHHHHHHHH--CCCEEEEEcCCCHHHHHHHHHH
Confidence 36788999999998887665554 3444444 33443332 233332222 46889999987776552 3
Q ss_pred CCeeEEEecCHH
Q 025696 150 EGIAFRFLPDPA 161 (249)
Q Consensus 150 ~~~~f~fVP~~~ 161 (249)
.++.|.++-|..
T Consensus 78 ~~~~~~~l~D~~ 89 (140)
T cd03017 78 YGLPFPLLSDPD 89 (140)
T ss_pred hCCCceEEECCc
Confidence 567788877754
No 26
>cd03018 PRX_AhpE_like Peroxiredoxin (PRX) family, AhpE-like subfamily; composed of proteins similar to Mycobacterium tuberculosis AhpE. AhpE is described as a 1-cys PRX because of the absence of a resolving cysteine. The structure and sequence of AhpE, however, show greater similarity to 2-cys PRXs than 1-cys PRXs. PRXs are thiol-specific antioxidant (TSA) proteins that confer a protective role in cells through their peroxidase activity in which hydrogen peroxide, peroxynitrate, and organic hydroperoxides are reduced and detoxified using reducing equivalents derived from either thioredoxin, glutathione, trypanothione and AhpF. The first step of catalysis is the nucleophilic attack by the peroxidatic cysteine on the peroxide leading to the formation of a cysteine sulfenic acid intermediate. The absence of a resolving cysteine suggests that functional AhpE is regenerated by an external reductant. The solution behavior and crystal structure of AhpE show that it forms dimers and octamers.
Probab=32.44 E-value=1.6e+02 Score=23.07 Aligned_cols=80 Identities=21% Similarity=0.328 Sum_probs=45.1
Q ss_pred CCcEEEEEcCCCCeEEEeCCCCCeeEEEEeecH---HHHHHHHHHHHHhccccc-CCeEEEEEehhHHHhh----hcCCe
Q 025696 81 GTAVYTVSNSSNEFVLISDPNGAKSIGLLCFRQ---EDAEAFLAQVRLRRKELR-SAAKVVPITLDQVYML----KVEGI 152 (249)
Q Consensus 81 ~VPVF~Vtn~~g~plli~~~~g~~~v~~fF~s~---~DAqa~L~qlk~~~P~l~-~~~kV~~v~L~~vy~l----~~~~~ 152 (249)
.+|-|.+++.+|..+..+.-.|.+.+..+|+.- .-....+.++++...+.+ .+++|..|+.+..-.+ ++.++
T Consensus 6 ~~p~~~l~~~~g~~v~l~~~~g~k~~vl~f~~~~~c~~C~~~~~~l~~~~~~~~~~~v~vi~vs~d~~~~~~~~~~~~~~ 85 (149)
T cd03018 6 KAPDFELPDQNGQEVRLSEFRGRKPVVLVFFPLAFTPVCTKELCALRDSLELFEAAGAEVLGISVDSPFSLRAWAEENGL 85 (149)
T ss_pred cCCCcEecCCCCCEEeHHHHcCCCeEEEEEeCCCCCccHHHHHHHHHHHHHHHHhCCCEEEEecCCCHHHHHHHHHhcCC
Confidence 468889999999988776655534444455410 111122222222222222 4688999988764444 23467
Q ss_pred eEEEecCH
Q 025696 153 AFRFLPDP 160 (249)
Q Consensus 153 ~f~fVP~~ 160 (249)
.|.++-|.
T Consensus 86 ~~~~~~D~ 93 (149)
T cd03018 86 TFPLLSDF 93 (149)
T ss_pred CceEecCC
Confidence 77777664
No 27
>PF04392 ABC_sub_bind: ABC transporter substrate binding protein; InterPro: IPR007487 ABC transporters belong to the ATP-Binding Cassette (ABC) superfamily, which uses the hydrolysis of ATP to energize diverse biological systems. ABC transporters are minimally constituted of two conserved regions: a highly conserved ATP binding cassette (ABC) and a less conserved transmembrane domain (TMD). These regions can be found on the same protein or on two different ones. Most ABC transporters function as a dimer and therefore are constituted of four domains, two ABC modules and two TMDs. This family contains many hypothetical proteins and some ABC transporter substrate binding proteins.; PDB: 3LFT_A 3LKV_A.
Probab=31.75 E-value=3.8e+02 Score=24.00 Aligned_cols=55 Identities=13% Similarity=0.048 Sum_probs=28.4
Q ss_pred HHHhhcCC-CcEEEEE--cCCCCeEEEeCCCCCeeEEEEeecHHHHHHHHHHHHHhccc
Q 025696 74 FVSKTLAG-TAVYTVS--NSSNEFVLISDPNGAKSIGLLCFRQEDAEAFLAQVRLRRKE 129 (249)
Q Consensus 74 ~i~ekL~~-VPVF~Vt--n~~g~plli~~~~g~~~v~~fF~s~~DAqa~L~qlk~~~P~ 129 (249)
.+.+.+.. +||.... |..+.-++-+...+++.+..+. +..+....++-+++-.|+
T Consensus 73 ~~~~~~~~~iPVVf~~V~dp~~~~l~~~~~~~~~nvTGv~-~~~~~~~~l~l~~~l~P~ 130 (294)
T PF04392_consen 73 ALAKHLKDDIPVVFCGVSDPVGAGLVDSLDRPGKNVTGVS-ERPPIEKQLELIKKLFPD 130 (294)
T ss_dssp HHHHH-SS-S-EEEECES-TTTTTS-S-SSS--SSEEEEE-E---HHHHHHHHHHHSTT
T ss_pred HHHHhcCCCcEEEEEeccChhhhhccccccCCCCCEEEEE-CCcCHHHHHHHHHHhCCC
Confidence 45566777 9985443 5555555443333223466666 677777888888887776
No 28
>PRK11611 enhanced serine sensitivity protein SseB; Provisional
Probab=30.93 E-value=87 Score=28.59 Aligned_cols=22 Identities=9% Similarity=0.309 Sum_probs=19.0
Q ss_pred eCCeEEeeeeecHHHHHHHHHH
Q 025696 193 KKNKRYCPVYFQKEDIEKELSK 214 (249)
Q Consensus 193 ~~~~~~~PlFF~keDL~~~l~k 214 (249)
.+|++++|+|-|.+.++.++..
T Consensus 50 ~dG~~~iP~FTS~e~l~~a~~~ 71 (246)
T PRK11611 50 EDGTSVIPFFTSLEALQQAVED 71 (246)
T ss_pred CCCCEEEEEeCCHHHHHHhhhc
Confidence 4888999999999999987654
No 29
>PF09587 PGA_cap: Bacterial capsule synthesis protein PGA_cap; InterPro: IPR019079 CapA is a putative poly-gamma-glutamate capsule biosynthesis protein found in bacteria. Poly-gamma-glutamate is a natural polymer that may be involved in virulence and may help bacteria survive in high salt concentrations. It is a surface-associated protein [].
Probab=29.54 E-value=84 Score=27.78 Aligned_cols=60 Identities=32% Similarity=0.436 Sum_probs=39.2
Q ss_pred HHHHHHHHHHhcccccCCeEEEEEehhHHHhhhcCCeeEEEecCHHHHHHHHHHhhhccc-------------CCCCCce
Q 025696 116 AEAFLAQVRLRRKELRSAAKVVPITLDQVYMLKVEGIAFRFLPDPAQIRNALELKAADVR-------------TGFDGVP 182 (249)
Q Consensus 116 Aqa~L~qlk~~~P~l~~~~kV~~v~L~~vy~l~~~~~~f~fVP~~~qV~~A~~L~~~~g~-------------~~f~GVP 182 (249)
.+.+++++++.. +++.+..|.+.- |..|...|++.|.+.|+++....-. +...|-|
T Consensus 170 ~~~i~~~i~~~r----~~~D~vIv~~Hw-------G~e~~~~p~~~q~~~a~~lidaGaDiIiG~HpHv~q~~E~y~~~~ 238 (250)
T PF09587_consen 170 IERIKEDIREAR----KKADVVIVSLHW-------GIEYENYPTPEQRELARALIDAGADIIIGHHPHVIQPVEIYKGKP 238 (250)
T ss_pred HHHHHHHHHHHh----cCCCEEEEEecc-------CCCCCCCCCHHHHHHHHHHHHcCCCEEEeCCCCcccceEEECCEE
Confidence 356666666543 234555555543 4457788999999999999874311 4456788
Q ss_pred EEee
Q 025696 183 VFQS 186 (249)
Q Consensus 183 VF~~ 186 (249)
|||+
T Consensus 239 I~YS 242 (250)
T PF09587_consen 239 IFYS 242 (250)
T ss_pred EEEe
Confidence 8885
No 30
>PRK09981 hypothetical protein; Provisional
Probab=27.94 E-value=86 Score=24.83 Aligned_cols=23 Identities=17% Similarity=0.355 Sum_probs=19.1
Q ss_pred eeEEEEeecHHHHHHHHHHHHHh
Q 025696 104 KSIGLLCFRQEDAEAFLAQVRLR 126 (249)
Q Consensus 104 ~~v~~fF~s~~DAqa~L~qlk~~ 126 (249)
-.+-.+|.++++|+++|+.+...
T Consensus 28 a~~~~~~~~~~~Ae~~l~~l~ek 50 (99)
T PRK09981 28 SKFSRFFATREEAESFMTKLKEL 50 (99)
T ss_pred EEEEEEeCCHHHHHHHHHHHHHH
Confidence 35778999999999999987663
No 31
>TIGR00743 conserved hypothetical protein. These small proteins are approximately 100 amino acids in length and appear to be found only in gamma proteobacteria. The function of this protein family is unknown.
Probab=27.59 E-value=1.8e+02 Score=22.84 Aligned_cols=52 Identities=19% Similarity=0.266 Sum_probs=33.3
Q ss_pred eEEEEeecHHHHHHHHHHHHHhcccccC---CeEEEEEehhHHHhhh--------cCCeeEEE
Q 025696 105 SIGLLCFRQEDAEAFLAQVRLRRKELRS---AAKVVPITLDQVYMLK--------VEGIAFRF 156 (249)
Q Consensus 105 ~v~~fF~s~~DAqa~L~qlk~~~P~l~~---~~kV~~v~L~~vy~l~--------~~~~~f~f 156 (249)
.+-.+|=++++|+++|+.+...-.+.-+ .++-...+.+.-++|+ .+.+.|++
T Consensus 30 ~~~~~~~~~~~Ae~~l~~l~ekAk~vesepc~I~~~i~~~e~g~~L~a~F~FsCqAEklIFQL 92 (95)
T TIGR00743 30 KFSRFFATRAEAESFLAKLTEKARAVESEPCEIASEITDVEDGVELDADFTFSCQAEMIIFEL 92 (95)
T ss_pred EEEEEeCCHHHHHHHHHHHHHHHHHhhcCCceeEEEEEEcCCcEEEEEEEEEEEEeeeEEEEe
Confidence 5677888999999999987664323223 2444444447777773 35666664
No 32
>COG1086 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]
Probab=27.31 E-value=1.7e+02 Score=30.08 Aligned_cols=80 Identities=9% Similarity=0.109 Sum_probs=50.6
Q ss_pred cEEEEEcCCCCeEEEeCCCCCeeEEEEeecHHHHHHHHHHHHHhcccccCCeEEEEEehhHHHhhhcCCeeEEEecCHHH
Q 025696 83 AVYTVSNSSNEFVLISDPNGAKSIGLLCFRQEDAEAFLAQVRLRRKELRSAAKVVPITLDQVYMLKVEGIAFRFLPDPAQ 162 (249)
Q Consensus 83 PVF~Vtn~~g~plli~~~~g~~~v~~fF~s~~DAqa~L~qlk~~~P~l~~~~kV~~v~L~~vy~l~~~~~~f~fVP~~~q 162 (249)
|.|-=-=++|+||++++++ +..|||+-.||-.++=|--.. +++..|-..-||. .-+-
T Consensus 428 PlFk~QI~~GgplTvTdp~----mtRyfMTI~EAv~LVlqA~a~----~~gGeifvldMGe---------------pvkI 484 (588)
T COG1086 428 PLFKKQIAEGGPLTVTDPD----MTRFFMTIPEAVQLVLQAGAI----AKGGEIFVLDMGE---------------PVKI 484 (588)
T ss_pred HHHHHHHHcCCCccccCCC----ceeEEEEHHHHHHHHHHHHhh----cCCCcEEEEcCCC---------------CeEH
Confidence 3333333567788887764 888999999999887665442 4455563333332 2234
Q ss_pred HHHHHHHhhhcccCCCCCceEEe
Q 025696 163 IRNALELKAADVRTGFDGVPVFQ 185 (249)
Q Consensus 163 V~~A~~L~~~~g~~~f~GVPVF~ 185 (249)
++-|+++..-.|....+.+|+-+
T Consensus 485 ~dLAk~mi~l~g~~~~~dI~I~~ 507 (588)
T COG1086 485 IDLAKAMIELAGQTPPGDIAIKI 507 (588)
T ss_pred HHHHHHHHHHhCCCCCCCCCeEE
Confidence 56778777766755556678776
No 33
>PF00568 WH1: WH1 domain; InterPro: IPR000697 The EVH1 (WH1, RanBP1-WASP) domain is found in multi-domain proteins implicated in a diverse range of signalling, nuclear transport and cytoskeletal events. This domain of around 115 amino acids is present in species ranging from yeast to mammals. Many EVH1-containing proteins associate with actin-based structures and play a role in cytoskeletal organisation. EVH1 domains recognise and bind the proline-rich motif FPPPP with low-affinity, further interactions then form between flanking residues [][]. WASP family proteins contain a EVH1 (WH1) in their N-terminals which bind proline-rich sequences in the WASP interacting protein. Proteins of the RanBP1 family contain a WH1 domain in their N-terminal region, which seems to bind a different sequence motif present in the C-terminal part of RanGTP protein [,]. Tertiary structure of the WH1 domain of the Mena protein revealed structure similarities with the pleckstrin homology (PH) domain. The overall fold consists of a compact parallel beta-sandwich, closed along one edge by a long alpha-helix. A highly conserved cluster of three surface-exposed aromatic side-chains forms the recognition site for the molecules target ligands. [].; GO: 0005515 protein binding; PDB: 1I2H_A 1DDV_A 1DDW_A 1EGX_A 3SYX_A 1TJ6_B 1XOD_B 1EVH_A 1I7A_B 2JP2_A ....
Probab=26.11 E-value=1.8e+02 Score=22.61 Aligned_cols=22 Identities=27% Similarity=0.381 Sum_probs=20.2
Q ss_pred eEEEEeecHHHHHHHHHHHHHh
Q 025696 105 SIGLLCFRQEDAEAFLAQVRLR 126 (249)
Q Consensus 105 ~v~~fF~s~~DAqa~L~qlk~~ 126 (249)
.+|+-|-+.+||.+|.+.+++.
T Consensus 89 ~~GLnF~se~eA~~F~~~v~~~ 110 (111)
T PF00568_consen 89 VYGLNFASEEEADQFYKKVQEA 110 (111)
T ss_dssp EEEEEESSHHHHHHHHHHHHHH
T ss_pred EEEEecCCHHHHHHHHHHHhcc
Confidence 7999999999999999998874
No 34
>PF10787 YfmQ: Uncharacterised protein from bacillus cereus group; InterPro: IPR019723 This entry represents proteins conserved in the Bacillus cereus group. Several members are called YfmQ but the function is not known.
Probab=25.78 E-value=1.4e+02 Score=25.23 Aligned_cols=35 Identities=17% Similarity=0.327 Sum_probs=29.8
Q ss_pred CCCeEEEeCCCCCeeEEEEeecHHHHHHHHHHHHH
Q 025696 91 SNEFVLISDPNGAKSIGLLCFRQEDAEAFLAQVRL 125 (249)
Q Consensus 91 ~g~plli~~~~g~~~v~~fF~s~~DAqa~L~qlk~ 125 (249)
.|.|++|....|.+.+..+-.+.+|=-..+.|.|+
T Consensus 91 ~gtPlvI~tKkGK~dv~f~vYsYdDHVDVVKQyKK 125 (149)
T PF10787_consen 91 SGTPLVIDTKKGKKDVTFFVYSYDDHVDVVKQYKK 125 (149)
T ss_pred CCCCEEEEeccCcceeEEEEEecccHHHHHHHhhh
Confidence 38999999888888888777899998888888777
No 35
>cd00837 EVH1 EVH1 (Enabled, Vasp-Homology) or WASP Homology (WH1) domain. EVH1 (Enabled, Vasp-Homology) or WASP Homology (WH1) domain. The EVH1 domain binds to other proteins at proline rich sequences in either FPPPP or PPXXF motifs. It is found in the cytoskeletal reorganization proteins Enabled VASP, and WASP, and in the synaptic scaffolding protein Homer. It has a PH-like fold, despite having minimal sequence similarity to PH or PTB domains.
Probab=25.54 E-value=2.1e+02 Score=22.13 Aligned_cols=31 Identities=29% Similarity=0.217 Sum_probs=23.7
Q ss_pred CeEEEeCCCCCeeEEEEeecHHHHHHHHHHHHH
Q 025696 93 EFVLISDPNGAKSIGLLCFRQEDAEAFLAQVRL 125 (249)
Q Consensus 93 ~plli~~~~g~~~v~~fF~s~~DAqa~L~qlk~ 125 (249)
-+....+.+ ..+|+-|-+.+||.+|...++.
T Consensus 72 ~Fh~w~~~~--~~~GL~F~se~eA~~F~~~v~~ 102 (104)
T cd00837 72 FFHQWEDDN--CVYGLNFASEEEAAQFRKKVLE 102 (104)
T ss_pred eEEEEEcCC--cEEEEeeCCHHHHHHHHHHHHh
Confidence 344444443 3699999999999999999876
No 36
>PF07411 DUF1508: Domain of unknown function (DUF1508); InterPro: IPR010879 This domain is found in a family of proteins, which have no known function. Members of this family are often found as tandem repeats and in some cases represent the whole protein.; PDB: 3BID_H 2K49_A 2K8E_A 2K7I_A.
Probab=25.45 E-value=1.8e+02 Score=19.66 Aligned_cols=38 Identities=16% Similarity=0.150 Sum_probs=26.8
Q ss_pred cEEEEEcCCCCeEEEeCCCCCeeEEEEeecHHHHHHHHHHHHHhccc
Q 025696 83 AVYTVSNSSNEFVLISDPNGAKSIGLLCFRQEDAEAFLAQVRLRRKE 129 (249)
Q Consensus 83 PVF~Vtn~~g~plli~~~~g~~~v~~fF~s~~DAqa~L~qlk~~~P~ 129 (249)
.-|.+...+|+.+. +. -.|-++.+|+.-++.+|+.-|+
T Consensus 6 ~~f~L~a~ng~via-ss--------e~Y~sk~~a~~~I~~Vk~~a~~ 43 (49)
T PF07411_consen 6 FRFRLKAGNGEVIA-SS--------EGYSSKADAEKGIESVKKNAPD 43 (49)
T ss_dssp EEEEEE-TTS-EEE-EB--------EEBSSHHHHHHHHHHHHHHTTT
T ss_pred EEEEEEcCCCCEEE-ec--------CCcCCHHHHHHHHHHHHHhCCC
Confidence 34666666666555 22 3689999999999999997664
No 37
>cd03016 PRX_1cys Peroxiredoxin (PRX) family, 1-cys PRX subfamily; composed of PRXs containing only one conserved cysteine, which serves as the peroxidatic cysteine. They are homodimeric thiol-specific antioxidant (TSA) proteins that confer a protective role in cells by reducing and detoxifying hydrogen peroxide, peroxynitrite, and organic hydroperoxides. As with all other PRXs, a cysteine sulfenic acid intermediate is formed upon reaction of 1-cys PRX with its substrates. Having no resolving cysteine, the oxidized enzyme is resolved by an external small-molecule or protein reductant such as thioredoxin or glutaredoxin. Similar to typical 2-cys PRX, 1-cys PRX forms a functional dimeric unit with a B-type interface, as well as a decameric structure which is stabilized in the reduced form of the enzyme. Other oligomeric forms, tetramers and hexamers, have also been reported. Mammalian 1-cys PRX is localized cellularly in the cytosol and is expressed at high levels in brain, eye, testes an
Probab=25.44 E-value=4.3e+02 Score=22.58 Aligned_cols=77 Identities=17% Similarity=0.203 Sum_probs=46.3
Q ss_pred CCcEEEEEcCCCCeEEEeCCCCCeeEEEEee-------cHHHHHHHHHHHHHhcccccCCeEEEEEehhHHHhhh-----
Q 025696 81 GTAVYTVSNSSNEFVLISDPNGAKSIGLLCF-------RQEDAEAFLAQVRLRRKELRSAAKVVPITLDQVYMLK----- 148 (249)
Q Consensus 81 ~VPVF~Vtn~~g~plli~~~~g~~~v~~fF~-------s~~DAqa~L~qlk~~~P~l~~~~kV~~v~L~~vy~l~----- 148 (249)
..|-|.+.+..|. +..+.-.|.+-+.+||+ +..+..++-+ +..+-- ..+++|..|+.+.....+
T Consensus 4 ~aP~F~~~~~~g~-~~l~d~~g~k~vvlf~~pa~~cp~C~~el~~l~~-~~~~f~--~~gv~vigvS~D~~~~~~~~~~~ 79 (203)
T cd03016 4 TAPNFEADTTHGP-IKFHDYLGDSWGILFSHPADFTPVCTTELGAFAK-LAPEFK--KRNVKLIGLSVDSVESHIKWIED 79 (203)
T ss_pred CCCCeEEecCCCc-EeHHHHcCCCEEEEEEecCCCCCcCHHHHHHHHH-HHHHHH--HcCCEEEEEECCCHHHHHHHHhh
Confidence 3688999888774 44443334344555554 5555444332 222111 246899999998876542
Q ss_pred -----cCCeeEEEecCHH
Q 025696 149 -----VEGIAFRFLPDPA 161 (249)
Q Consensus 149 -----~~~~~f~fVP~~~ 161 (249)
..++.|.++.|..
T Consensus 80 i~~~~~~~~~fpil~D~~ 97 (203)
T cd03016 80 IEEYTGVEIPFPIIADPD 97 (203)
T ss_pred HHHhcCCCCceeEEECch
Confidence 1478899998864
No 38
>PF11582 DUF3240: Protein of unknown function (DUF3240); InterPro: IPR021634 This family of proteins with unknown function appears to be restricted to Proteobacteria. ; PDB: 3CE8_A.
Probab=24.42 E-value=1.1e+02 Score=23.89 Aligned_cols=67 Identities=22% Similarity=0.233 Sum_probs=35.3
Q ss_pred HHHHhhcCC----CcEEEEEcCCC---CeEEEeC-CC--C--CeeEEEEeecHHHHHHHHHHHHHhcccccCCeEEEEE
Q 025696 73 DFVSKTLAG----TAVYTVSNSSN---EFVLISD-PN--G--AKSIGLLCFRQEDAEAFLAQVRLRRKELRSAAKVVPI 139 (249)
Q Consensus 73 ~~i~ekL~~----VPVF~Vtn~~g---~plli~~-~~--g--~~~v~~fF~s~~DAqa~L~qlk~~~P~l~~~~kV~~v 139 (249)
+.+++.|-. |+=|++.+-.| ..-..+. ++ | ..-..-++++.++|+.+|+.+++..+.-+-..-|.||
T Consensus 17 d~lvD~Ll~~~~~v~GFt~~~~~g~g~~~~~~s~~EQV~G~~~~~~~~~~~~~~~~~~Ll~~L~~~~~~~~i~ywv~Pv 95 (102)
T PF11582_consen 17 DALVDYLLELPDGVSGFTSSPAEGHGSRHSLLSAAEQVSGRARRVRFQVILPEEDAEELLAALKQEFAGTGIRYWVTPV 95 (102)
T ss_dssp HHHHHHHTT--TT----EEEEEEEEE-------------EEEEEEEEEEEEEGGGHHHHHHHHHHHTTTS--EEEEEE-
T ss_pred HHHHHHHHHhcCccCCceEeeccccCCcccCCCHHHhcccccceEEEEEEECHHHHHHHHHHHHHHcCCCCcEEEEEhH
Confidence 455555543 45588886666 1111111 11 2 2235678999999999999999988763333444444
No 39
>cd02968 SCO SCO (an acronym for Synthesis of Cytochrome c Oxidase) family; composed of proteins similar to Sco1, a membrane-anchored protein possessing a soluble domain with a TRX fold. Members of this family are required for the proper assembly of cytochrome c oxidase (COX). They contain a metal binding motif, typically CXXXC, which is located in a flexible loop. COX, the terminal enzyme in the respiratory chain, is imbedded in the inner mitochondrial membrane of all eukaryotes and in the plasma membrane of some prokaryotes. It is composed of two subunits, COX I and COX II. It has been proposed that Sco1 specifically delivers copper to the CuA site, a dinuclear copper center, of the COX II subunit. Mutations in human Sco1 and Sco2 cause fatal infantile hepatoencephalomyopathy and cardioencephalomyopathy, respectively. Both disorders are associated with severe COX deficiency in affected tissues. More recently, it has been argued that the redox sensitivity of the copper binding properti
Probab=24.23 E-value=95 Score=24.10 Aligned_cols=79 Identities=23% Similarity=0.213 Sum_probs=43.8
Q ss_pred CcEEEEEcCCCCeEEEeCCCCCeeEEEEeecHH---HHHHHHHHHHHhccccc----CCeEEEEEehhHH----Hhh---
Q 025696 82 TAVYTVSNSSNEFVLISDPNGAKSIGLLCFRQE---DAEAFLAQVRLRRKELR----SAAKVVPITLDQV----YML--- 147 (249)
Q Consensus 82 VPVF~Vtn~~g~plli~~~~g~~~v~~fF~s~~---DAqa~L~qlk~~~P~l~----~~~kV~~v~L~~v----y~l--- 147 (249)
.|-|++.+.+|..+....-.| +.+..+|+... -..+.+..+++...++. .+++|..|+.+.. -.+
T Consensus 2 ~p~f~l~~~~g~~~~l~~~~g-k~~vl~f~~~~C~~~C~~~l~~l~~~~~~~~~~~~~~v~~v~vs~d~~~d~~~~~~~~ 80 (142)
T cd02968 2 GPDFTLTDQDGRPVTLSDLKG-KPVLVYFGYTHCPDVCPTTLANLAQALKQLGADGGDDVQVVFISVDPERDTPEVLKAY 80 (142)
T ss_pred CCceEEEcCCCCEEchHHhCC-CEEEEEEEcCCCcccCHHHHHHHHHHHHHhhHhhcCceEEEEEEECCCCCCHHHHHHH
Confidence 588999999998877654444 34444553111 12223333333222222 2588888987532 222
Q ss_pred -hcCCeeEEEecCHH
Q 025696 148 -KVEGIAFRFLPDPA 161 (249)
Q Consensus 148 -~~~~~~f~fVP~~~ 161 (249)
+..+..|.++.+..
T Consensus 81 ~~~~~~~~~~l~~~~ 95 (142)
T cd02968 81 AKAFGPGWIGLTGTP 95 (142)
T ss_pred HHHhCCCcEEEECCH
Confidence 23457888888754
No 40
>COG0301 ThiI Thiamine biosynthesis ATP pyrophosphatase [Coenzyme metabolism]
Probab=23.77 E-value=2.7e+02 Score=27.12 Aligned_cols=73 Identities=16% Similarity=0.216 Sum_probs=47.0
Q ss_pred CCCCCceEEee--------ccee-------eeeCCeEEeeeeec-----HHHHHHHHHHHH-HhcCCCCCcceEEEEeHH
Q 025696 176 TGFDGVPVFQS--------ELLV-------VKKKNKRYCPVYFQ-----KEDIEKELSKVS-RASRGAGVSQHIMVGSLE 234 (249)
Q Consensus 176 ~~f~GVPVF~~--------~~Lt-------i~~~~~~~~PlFF~-----keDL~~~l~k~~-k~~p~~~~~~~I~V~~Le 234 (249)
++.+|.||-.+ +++. +.+.|-.+.++||. -+.+..-+..+. ..........++-++++.
T Consensus 165 ~G~GGLPvGt~Gk~l~LlSGGIDSPVA~~l~mkRG~~v~~v~f~~~p~~~~~a~~k~~~l~~~~~~~~~~~~~~~~v~f~ 244 (383)
T COG0301 165 KGPGGLPVGTQGKVLLLLSGGIDSPVAAWLMMKRGVEVIPVHFGNPPYTSEKAREKVVALALLRLTSYGGKVRLYVVPFT 244 (383)
T ss_pred ccCCCCccccCCcEEEEEeCCCChHHHHHHHHhcCCEEEEEEEcCCCCchHHHHHHHHHHHhhhhcccCCceEEEEEchH
Confidence 55678999883 3332 14566779999993 222333333333 333334446889999999
Q ss_pred HHHHHhhcCCcCCC
Q 025696 235 DVLKKMEVPCLNVF 248 (249)
Q Consensus 235 ~vi~~m~~~~~~~~ 248 (249)
++.+.|....++.|
T Consensus 245 ~v~~~i~~~~~~~y 258 (383)
T COG0301 245 EVQEEILEKVPESY 258 (383)
T ss_pred HHHHHHHhhcCccc
Confidence 99999988776654
No 41
>PF14483 Cut8_M: Cut8 dimerisation domain; PDB: 3Q5W_A 3Q5X_A.
Probab=23.03 E-value=40 Score=22.01 Aligned_cols=23 Identities=13% Similarity=0.349 Sum_probs=19.5
Q ss_pred ecHHHHHHHHHHHHHhcccccCC
Q 025696 111 FRQEDAEAFLAQVRLRRKELRSA 133 (249)
Q Consensus 111 ~s~~DAqa~L~qlk~~~P~l~~~ 133 (249)
+|++.-+.+|..+..++|+++..
T Consensus 10 Ld~~qL~~lL~~l~~~HPei~~~ 32 (38)
T PF14483_consen 10 LDKDQLQSLLQSLCERHPEIQQE 32 (38)
T ss_dssp S-HHHHHHHHHHHHHHSTHHHHH
T ss_pred cCHHHHHHHHHHHHHhChhHHHH
Confidence 68889999999999999998754
No 42
>PF00837 T4_deiodinase: Iodothyronine deiodinase; InterPro: IPR000643 Iodothyronine deiodinase (1.97.1.10 from EC) (DI) [] is the vertebrate enzyme responsible for the deiodination of the prohormone thyroxine (T4 or 3,5,3',5'-tetraiodothyronine) into the biologically active hormone T3 (3,5,3'-triiodothyronine) and of T3 into the inactive metabolite T2 (3,3'-diiodothyronine). All known DI are proteins of about 250 residues that contain a selenocysteine at their active site. Three types of DI are known, type II is essential for providing the brain with the appropriate levels of T3 during the critical period of development, and type III is essential for the regulation of thyroid hormone inactivation during embryological development.; GO: 0004800 thyroxine 5'-deiodinase activity, 0055114 oxidation-reduction process
Probab=22.52 E-value=2e+02 Score=26.20 Aligned_cols=119 Identities=18% Similarity=0.230 Sum_probs=68.7
Q ss_pred CcEEEEEcCC----------CCeEEEeCCCCCeeEEEEeecHHHHHHHHHHHHHhcccccCCeEEEEEehhHHHhhh---
Q 025696 82 TAVYTVSNSS----------NEFVLISDPNGAKSIGLLCFRQEDAEAFLAQVRLRRKELRSAAKVVPITLDQVYMLK--- 148 (249)
Q Consensus 82 VPVF~Vtn~~----------g~plli~~~~g~~~v~~fF~s~~DAqa~L~qlk~~~P~l~~~~kV~~v~L~~vy~l~--- 148 (249)
.||.++.+.. |.||+++= |. -.++.|+++-++= +++-.+..+ -+.-..|=+.+|.--.
T Consensus 82 s~vv~l~g~~~~~ildf~~g~RPLVlnF--GS-~TCPpF~~~l~~f---~~l~~~f~d---~adFl~VYI~EAHpsDgW~ 152 (237)
T PF00837_consen 82 SPVVTLDGQRSCRILDFAKGNRPLVLNF--GS-CTCPPFMAKLDAF---KRLVEDFSD---VADFLIVYIEEAHPSDGWA 152 (237)
T ss_pred CceEeeCCCcceeHHHhccCCCCeEEEc--cc-ccchHHHHHHHHH---HHHHHHhhh---hhheehhhHhhhCcCCCcc
Confidence 5666666555 57777743 32 3578888876543 333333332 2444445455554321
Q ss_pred cCCeeEEEecCHHHH----HHHHHHhhhcccCCCCCceEEe--------------ecceeeeeCCeE-----EeeeeecH
Q 025696 149 VEGIAFRFLPDPAQI----RNALELKAADVRTGFDGVPVFQ--------------SELLVVKKKNKR-----YCPVYFQK 205 (249)
Q Consensus 149 ~~~~~f~fVP~~~qV----~~A~~L~~~~g~~~f~GVPVF~--------------~~~Lti~~~~~~-----~~PlFF~k 205 (249)
..+..+. ||..+.+ .+|+.|++. +.+.||++ -+-|.|-++++- .-|..|+.
T Consensus 153 ~~~~~~~-i~qh~sledR~~aA~~l~~~-----~~~~pi~vD~mdN~~~~~YgA~PeRlyIi~~gkv~Y~Gg~GP~~y~~ 226 (237)
T PF00837_consen 153 FGNNPYE-IPQHRSLEDRLRAAKLLKEE-----FPQCPIVVDTMDNNFNKAYGALPERLYIIQDGKVVYKGGPGPFGYSP 226 (237)
T ss_pred CCCCcee-ecCCCCHHHHHHHHHHHHhh-----CCCCCEEEEccCCHHHHHhCCCcceEEEEECCEEEEeCCCCCCcCCH
Confidence 1111122 4554444 457766643 36889988 144665455553 46999999
Q ss_pred HHHHHHHHHH
Q 025696 206 EDIEKELSKV 215 (249)
Q Consensus 206 eDL~~~l~k~ 215 (249)
+|+...|+++
T Consensus 227 ~e~r~~L~~~ 236 (237)
T PF00837_consen 227 EELREWLEKY 236 (237)
T ss_pred HHHHHHHHhc
Confidence 9999999986
No 43
>PF02829 3H: 3H domain; InterPro: IPR004173 The 3H domain is named after its three highly conserved histidine residues. The 3H domain appears to be a small molecule-binding domain, based on its occurrence with other domains []. Several proteins carrying this domain are transcriptional regulators from the biotin repressor family. The transcription regulator TM1602 from Thermotoga maritima is a DNA-binding protein thought to belong to a family of de novo NAD synthesis pathway regulators. TM1602 has an N-terminal DNA-binding domain and a C-terminal 3H regulatory domain. The N-terminal domain appears to bind to the NAD promoter region and repress the de novo NAD biosynthesis operon, while the C-terminal 3H domain may bind to nicotinamide, nicotinic acid, or other substrate/products []. The 3H domain has a 2-layer alpha/beta sandwich fold.; GO: 0005488 binding; PDB: 1J5Y_A.
Probab=21.74 E-value=4e+02 Score=20.84 Aligned_cols=53 Identities=17% Similarity=0.184 Sum_probs=34.4
Q ss_pred EEeecHHHHHHHHHHHHHhcccccCCeEEEEEehhHHHhhhcCC--eeEEEecCHHHHHHHHHHhhhcc
Q 025696 108 LLCFRQEDAEAFLAQVRLRRKELRSAAKVVPITLDQVYMLKVEG--IAFRFLPDPAQIRNALELKAADV 174 (249)
Q Consensus 108 ~fF~s~~DAqa~L~qlk~~~P~l~~~~kV~~v~L~~vy~l~~~~--~~f~fVP~~~qV~~A~~L~~~~g 174 (249)
+.--++.|++.|++++++.+- + + .|.+ .+| ...--.|+++.++.+.+-+++.|
T Consensus 41 L~i~sr~Dv~~Fi~~l~~~~~------~----~---Ls~L-T~GvH~HtI~a~~~e~l~~I~~~L~~~G 95 (98)
T PF02829_consen 41 LNISSRRDVDKFIEKLEKSKA------K----P---LSSL-TGGVHYHTIEAPDEEDLDKIEEALKKKG 95 (98)
T ss_dssp EEE-SHHHHHHHHHHHHH--S---------------STTG-GGGEEEEEEEESSHHHHHHHHHHHHHTT
T ss_pred EecCCHHHHHHHHHHHhccCC------c----c---hHHh-cCCEeeEEEEECCHHHHHHHHHHHHHCC
Confidence 344599999999999999532 2 1 1222 234 23346799999999998887654
No 44
>PF08534 Redoxin: Redoxin; InterPro: IPR013740 This redoxin domain is found in peroxiredoxin, thioredoxin and glutaredoxin proteins. Peroxiredoxins (Prxs) constitute a family of thiol peroxidases that reduce hydrogen peroxide, peroxinitrite, and hydroperoxides using a strictly conserved cysteine []. Chloroplast thioredoxin systems in plants regulate the enzymes involved in photosynthetic carbon assimilation []. It is thought that redoxins have a large role to play in anti-oxidant defence. Cadmium-sensitive proteins are also regulated via thioredoxin and glutaredoxin thiol redox systems [].; GO: 0016491 oxidoreductase activity; PDB: 2H30_A 1TP9_A 1Y25_A 1XVQ_A 2B1K_A 2G0F_A 2B1L_B 3K8N_A 1Z5Y_E 3OR5_A ....
Probab=21.53 E-value=2.3e+02 Score=22.18 Aligned_cols=76 Identities=20% Similarity=0.297 Sum_probs=43.1
Q ss_pred CCcEEEEE--cCCCCeEEEeCCCCCeeEEEEeec------HHHHHHHHHHHHHhcccccCCeEEEEEehhHH---Hhh-h
Q 025696 81 GTAVYTVS--NSSNEFVLISDPNGAKSIGLLCFR------QEDAEAFLAQVRLRRKELRSAAKVVPITLDQV---YML-K 148 (249)
Q Consensus 81 ~VPVF~Vt--n~~g~plli~~~~g~~~v~~fF~s------~~DAqa~L~qlk~~~P~l~~~~kV~~v~L~~v---y~l-~ 148 (249)
.+|-|.++ +.+|..+..+.-+|...+..||-+ ..+.- .++++.+...+ .++.+..|..+.- -+. +
T Consensus 5 ~~P~~~~~~~~~~g~~~~l~~~~gk~~vv~f~~~~~Cp~C~~~~p-~l~~l~~~~~~--~~v~~v~v~~~~~~~~~~~~~ 81 (146)
T PF08534_consen 5 KAPDFSLKDLDLDGKPVSLSDFKGKPVVVNFWASAWCPPCRKELP-YLNELQEKYKD--KGVDVVGVSSDDDPPVREFLK 81 (146)
T ss_dssp B--CCEEEEEETTSEEEEGGGGTTSEEEEEEESTTTSHHHHHHHH-HHHHHHHHHHT--TTCEEEEEEESSSHHHHHHHH
T ss_pred CCCCeEEEeecCCCCEecHHHhCCCeEEEEEEccCCCCcchhhhh-hHHhhhhhhcc--CceEEEEecccCCHHHHHHHH
Confidence 46888885 499999998776665444444444 44444 77777664332 4466666654322 222 2
Q ss_pred cCCeeEEEecC
Q 025696 149 VEGIAFRFLPD 159 (249)
Q Consensus 149 ~~~~~f~fVP~ 159 (249)
+.++.|.++-|
T Consensus 82 ~~~~~~~~~~D 92 (146)
T PF08534_consen 82 KYGINFPVLSD 92 (146)
T ss_dssp HTTTTSEEEEE
T ss_pred hhCCCceEEec
Confidence 35555666665
No 45
>COG3603 Uncharacterized conserved protein [Function unknown]
Probab=21.51 E-value=84 Score=25.95 Aligned_cols=20 Identities=20% Similarity=0.592 Sum_probs=15.9
Q ss_pred CCCcEEEEEcCCCCeEEEeC
Q 025696 80 AGTAVYTVSNSSNEFVLISD 99 (249)
Q Consensus 80 ~~VPVF~Vtn~~g~plli~~ 99 (249)
++|++|+|..-++.++++..
T Consensus 90 ~gigIFavStydtDhiLVr~ 109 (128)
T COG3603 90 NGIGIFAVSTYDTDHILVRE 109 (128)
T ss_pred CCccEEEEEeccCceEEEeh
Confidence 58999999998887777743
No 46
>cd02122 PA_GRAIL_like PA _GRAIL_like: Protease-associated (PA) domain GRAIL-like. This group includes PA domain containing E3 (ubiquitin ligases) similar to human GRAIL (gene related to anergy in lymphocytes) protein. Proteins in this group contain a C3H2C3 RING finger. E3 ubiquitin ligase is part of an enzymic cascade, the end result of which is the ubiquitination of proteins. In this cascade, E1 activates the ubiquitin, the activated ubiquitin is carried by E2, and E3 recognizes the acceptor protein as well as catalyzes the transfer of the activated ubiquitin from E2 to this acceptor. GRAIL, a transmembrane protein localized in the endosomes, controls the development of T cell clonal anergy, and may ubiquitinate membrane-associated targets for T cell activation. GRAIL1 is associated with, and regulated by, two isoforms of otubain 1 (the ubiquitin-specific protease). Additional E3s belonging to this group include human (h)Goliath and Xenopus GREUL1 (Goliath Related E3 Ubiquitin Ligase
Probab=21.23 E-value=3.2e+02 Score=22.32 Aligned_cols=52 Identities=12% Similarity=0.084 Sum_probs=33.9
Q ss_pred HHHhhcCCCcEEEEEcCC-CCeEEEeCCCCCeeEEEEeecHHHHHHHHHHHHH
Q 025696 74 FVSKTLAGTAVYTVSNSS-NEFVLISDPNGAKSIGLLCFRQEDAEAFLAQVRL 125 (249)
Q Consensus 74 ~i~ekL~~VPVF~Vtn~~-g~plli~~~~g~~~v~~fF~s~~DAqa~L~qlk~ 125 (249)
..+++.+..=|.+..|.. +..++.-..++...+..++++++|++++++.++.
T Consensus 78 ~nA~~aGA~aVIIyn~~~~~~~~~~m~~~~~~~ip~v~Is~~~G~~l~~~l~~ 130 (138)
T cd02122 78 KLAAERNASAVVIYNNPGTGNETVKMSHPGTGDIVAIMITNPKGMEILELLER 130 (138)
T ss_pred HHHHHCCCcEEEEEECCCCCCceeeccCCCCCcceEEEEcHHHHHHHHHHHHc
Confidence 445666777776666665 4333321222223466789999999999999865
No 47
>cd03014 PRX_Atyp2cys Peroxiredoxin (PRX) family, Atypical 2-cys PRX subfamily; composed of PRXs containing peroxidatic and resolving cysteines, similar to the homodimeric thiol specific antioxidant (TSA) protein also known as TRX-dependent thiol peroxidase (Tpx). Tpx is a bacterial periplasmic peroxidase which differs from other PRXs in that it shows substrate specificity toward alkyl hydroperoxides over hydrogen peroxide. As with all other PRXs, the peroxidatic cysteine (N-terminal) of Tpx is oxidized into a sulfenic acid intermediate upon reaction with peroxides. Tpx is able to resolve this intermediate by forming an intramolecular disulfide bond with a conserved C-terminal cysteine (the resolving cysteine), which can then be reduced by thioredoxin. This differs from the typical 2-cys PRX which resolves the oxidized cysteine by forming an intermolecular disulfide bond with the resolving cysteine from the other subunit of the homodimer. Atypical 2-cys PRX homodimers have a loop-based
Probab=20.68 E-value=1.9e+02 Score=22.57 Aligned_cols=74 Identities=20% Similarity=0.215 Sum_probs=44.2
Q ss_pred CCcEEEEEcCCCCeEEEeCCCCCeeEEEEeec-------HHHHHHHHHHHHHhcccccCCeEEEEEehhHHHhhh----c
Q 025696 81 GTAVYTVSNSSNEFVLISDPNGAKSIGLLCFR-------QEDAEAFLAQVRLRRKELRSAAKVVPITLDQVYMLK----V 149 (249)
Q Consensus 81 ~VPVF~Vtn~~g~plli~~~~g~~~v~~fF~s-------~~DAqa~L~qlk~~~P~l~~~~kV~~v~L~~vy~l~----~ 149 (249)
..|=|.+.|.+|..+..+.-.|. .+.++|+. ..+... |+++.++ . .++.|..|+.+....++ .
T Consensus 5 ~aP~f~l~~~~g~~~~l~~~~gk-~vvl~f~~~~~c~~C~~e~~~-l~~~~~~---~-~~~~vi~Is~d~~~~~~~~~~~ 78 (143)
T cd03014 5 KAPDFTLVTSDLSEVSLADFAGK-VKVISVFPSIDTPVCATQTKR-FNKEAAK---L-DNTVVLTISADLPFAQKRWCGA 78 (143)
T ss_pred CCCCcEEECCCCcEEeHHHhCCC-eEEEEEEcCCCCCcCHHHHHH-HHHHHHh---c-CCCEEEEEECCCHHHHHHHHHh
Confidence 46889999999987776554454 34445442 333222 3333333 2 36899999998765442 2
Q ss_pred CC-eeEEEecCH
Q 025696 150 EG-IAFRFLPDP 160 (249)
Q Consensus 150 ~~-~~f~fVP~~ 160 (249)
-+ ..|.++-+.
T Consensus 79 ~~~~~~~~l~D~ 90 (143)
T cd03014 79 EGVDNVTTLSDF 90 (143)
T ss_pred cCCCCceEeecC
Confidence 23 257777665
No 48
>smart00461 WH1 WASP homology region 1. Region of the Wiskott-Aldrich syndrome protein (WASp) that contains point mutations in the majority of patients with WAS. Unknown function. Ena-like WH1 domains bind polyproline-containing peptides, and that Homer contains a WH1 domain.
Probab=20.59 E-value=1.3e+02 Score=23.56 Aligned_cols=24 Identities=25% Similarity=0.210 Sum_probs=20.8
Q ss_pred CeeEEEEeecHHHHHHHHHHHHHh
Q 025696 103 AKSIGLLCFRQEDAEAFLAQVRLR 126 (249)
Q Consensus 103 ~~~v~~fF~s~~DAqa~L~qlk~~ 126 (249)
...+|+-|-+.+||.+|...+...
T Consensus 82 ~~~~GLnF~se~EA~~F~~~v~~~ 105 (106)
T smart00461 82 KCVYGLNFASEEEAKKFRKKVLKA 105 (106)
T ss_pred CeEEEeecCCHHHHHHHHHHHHhc
Confidence 347999999999999999998763
No 49
>KOG3671 consensus Actin regulatory protein (Wiskott-Aldrich syndrome protein) [Signal transduction mechanisms; Cytoskeleton]
Probab=20.30 E-value=1.5e+02 Score=30.03 Aligned_cols=48 Identities=17% Similarity=0.180 Sum_probs=32.7
Q ss_pred ChHHHHhhcCCCcEEEEEcCCCCeEEEeCCCCCeeEEEEeecHHHHHHHHHHHHHh
Q 025696 71 SSDFVSKTLAGTAVYTVSNSSNEFVLISDPNGAKSIGLLCFRQEDAEAFLAQVRLR 126 (249)
Q Consensus 71 ~~~~i~ekL~~VPVF~Vtn~~g~plli~~~~g~~~v~~fF~s~~DAqa~L~qlk~~ 126 (249)
=++|+++.+. ..-...-|.++.++++ ++|+-|++.+||+.|++.+..+
T Consensus 91 WdqELY~nf~------y~q~r~ffhtFegddc--~aGLnF~~E~EA~~F~k~V~~r 138 (569)
T KOG3671|consen 91 WDQELYQNFE------YRQPRTFFHTFEGDDC--QAGLNFASEEEAQKFRKKVQDR 138 (569)
T ss_pred ehHHhhhhce------eccCccceeeeccccc--eeeecccCHHHHHHHHHHHHHH
Confidence 3456666554 1123345555656554 7999999999999999987663
Done!