Query psy3321
Match_columns 110
No_of_seqs 104 out of 241
Neff 5.2
Searched_HMMs 46136
Date Fri Aug 16 21:59:35 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy3321.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/3321hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1233|consensus 99.9 6.1E-24 1.3E-28 177.5 6.4 98 1-98 421-518 (613)
2 PF02913 FAD-oxidase_C: FAD li 98.5 2.8E-08 6E-13 73.3 0.8 86 1-86 62-154 (248)
3 TIGR00387 glcD glycolate oxida 97.9 1.3E-05 2.7E-10 66.2 3.9 80 2-85 235-319 (413)
4 PRK11230 glycolate oxidase sub 97.4 0.00022 4.7E-09 60.8 4.3 78 2-83 292-374 (499)
5 PLN02805 D-lactate dehydrogena 96.8 0.0019 4.1E-08 56.1 4.4 82 1-84 366-452 (555)
6 COG3286 Uncharacterized protei 92.5 0.49 1.1E-05 36.8 6.2 84 3-86 41-135 (204)
7 PF09840 DUF2067: Uncharacteri 77.5 8.9 0.00019 29.3 5.9 83 3-85 38-131 (190)
8 COG1071 AcoA Pyruvate/2-oxoglu 56.3 33 0.00072 28.8 5.6 83 6-97 229-333 (358)
9 PF14257 DUF4349: Domain of un 56.0 26 0.00056 27.1 4.7 77 10-86 59-144 (262)
10 PF13590 DUF4136: Domain of un 53.6 16 0.00035 25.1 2.9 30 74-104 35-64 (151)
11 cd00248 Mth938-like Mth938-lik 48.1 12 0.00026 25.7 1.5 26 41-66 63-88 (109)
12 cd07947 DRE_TIM_Re_CS Clostrid 41.3 59 0.0013 25.9 4.7 71 9-80 110-196 (279)
13 PLN03220 uncharacterized prote 39.3 27 0.00059 24.6 2.2 16 39-54 50-67 (105)
14 cd05560 Xcc1710_like Xcc1710_l 39.2 19 0.00042 24.7 1.4 28 39-66 61-88 (109)
15 KOG0496|consensus 39.2 24 0.00053 31.9 2.4 64 10-73 142-210 (649)
16 TIGR00510 lipA lipoate synthas 38.1 42 0.0009 27.2 3.4 54 1-58 213-275 (302)
17 KOG4179|consensus 35.4 15 0.00032 32.2 0.5 20 51-71 510-529 (568)
18 KOG2872|consensus 32.8 55 0.0012 27.5 3.3 29 17-51 207-235 (359)
19 COG3010 NanE Putative N-acetyl 30.5 89 0.0019 24.9 4.0 71 3-84 156-227 (229)
20 PLN02269 Pyruvate dehydrogenas 28.2 2E+02 0.0043 23.9 5.9 76 5-89 227-324 (362)
21 cd07045 BMC_CcmK_like Carbon d 27.2 95 0.0021 20.4 3.2 28 2-29 40-67 (84)
22 PF12738 PTCB-BRCT: twin BRCT 24.7 30 0.00065 20.6 0.4 29 2-33 2-30 (63)
23 cd00886 MogA_MoaB MogA_MoaB fa 24.6 1.2E+02 0.0025 21.6 3.5 38 44-83 20-57 (152)
24 cd05125 Mth938_2P1-like Mth938 24.2 54 0.0012 22.9 1.7 34 29-67 58-91 (114)
25 cd07963 Anticodon_Ia_Cys Antic 23.7 49 0.0011 23.4 1.4 27 44-70 128-155 (156)
26 TIGR00177 molyb_syn molybdenum 23.7 1.3E+02 0.0029 21.1 3.7 40 42-83 25-64 (144)
27 TIGR03182 PDH_E1_alph_y pyruva 23.4 2.8E+02 0.006 22.2 5.8 76 5-89 201-297 (315)
28 PF13368 Toprim_C_rpt: Topoiso 22.9 23 0.00049 21.9 -0.4 16 40-56 10-25 (61)
29 PF00676 E1_dh: Dehydrogenase 22.3 1.4E+02 0.0031 23.8 3.9 78 4-89 191-290 (300)
30 COG3737 Uncharacterized conser 22.2 50 0.0011 24.0 1.2 48 16-68 57-107 (127)
31 PF02042 RWP-RK: RWP-RK domain 22.1 79 0.0017 19.4 1.9 17 82-98 31-47 (52)
32 PF04430 DUF498: Protein of un 21.8 53 0.0011 22.3 1.2 27 40-66 63-89 (110)
33 cd03522 MoeA_like MoeA_like. T 21.5 2.6E+02 0.0056 22.8 5.3 66 14-82 137-215 (312)
34 PF00487 FA_desaturase: Fatty 21.5 74 0.0016 22.5 2.0 25 65-93 228-252 (257)
35 PF01883 DUF59: Domain of unkn 21.4 1.1E+02 0.0025 18.6 2.6 50 44-98 11-70 (72)
36 PRK09487 sdhC succinate dehydr 21.3 31 0.00067 24.7 -0.1 28 49-76 89-116 (129)
37 cd07939 DRE_TIM_NifV Streptomy 21.3 1.8E+02 0.0038 22.4 4.2 65 13-82 109-180 (259)
38 PF10979 DUF2786: Protein of u 21.2 1.4E+02 0.0031 17.4 2.8 21 7-27 19-39 (43)
39 PF14791 DNA_pol_B_thumb: DNA 20.7 19 0.00041 22.7 -1.1 26 2-32 2-27 (64)
40 COG2224 AceA Isocitrate lyase 20.5 1.3E+02 0.0028 26.1 3.4 41 66-106 112-155 (433)
41 PF01766 Birna_VP2: Birnavirus 20.5 12 0.00026 32.3 -2.7 48 3-50 121-173 (441)
42 PRK06195 DNA polymerase III su 20.4 89 0.0019 24.9 2.4 29 1-31 224-252 (309)
43 COG3531 Predicted protein-disu 20.4 1.1E+02 0.0024 24.1 2.9 52 45-98 127-178 (212)
44 PF00665 rve: Integrase core d 20.3 84 0.0018 20.1 1.9 67 11-82 48-119 (120)
45 PF07478 Dala_Dala_lig_C: D-al 20.3 1.3E+02 0.0028 22.6 3.1 43 61-105 119-161 (203)
46 PRK07998 gatY putative fructos 20.0 2.8E+02 0.0061 22.4 5.2 63 3-67 101-174 (283)
No 1
>KOG1233|consensus
Probab=99.89 E-value=6.1e-24 Score=177.50 Aligned_cols=98 Identities=47% Similarity=0.866 Sum_probs=94.3
Q ss_pred CEEEEecChHHHHhHHHHHHHHHHHcCCcccCCcccccccccccchhhchHHHHhccCceeeeeccccccCcHHHHHHHH
Q psy3321 1 MALLVLGDPEDVKNNEDKIYSIAKRYGGIPAGESNGRRGYMLTYIIAYIRDFACDYYFIGDSFETSVPWDKTVLLCINVK 80 (110)
Q Consensus 1 ~~lgfEG~~~~V~~~~~~~~~I~~~~GGv~~G~~~G~~W~~~rF~~PYLRD~l~~~G~~~DT~ETAv~Ws~v~~l~~~V~ 80 (110)
+++.|||+.++|+++.+++++|+.+++|+..|+++|+.+|..+|.++||||+.+++|+++|+||||+|||++..||++||
T Consensus 421 ATllfEGdre~V~qhE~~~y~iAekF~G~~aG~~NGqrGY~LTfvIAYiRDlgl~~gvlgESFETSvPWDrv~~LCRnVK 500 (613)
T KOG1233|consen 421 ATLLFEGDREEVDQHEERLYKIAEKFHGVVAGAENGQRGYRLTFVIAYIRDLGLNHGVLGESFETSVPWDRVLSLCRNVK 500 (613)
T ss_pred hhheecccHHHHHHHHHHHHHHHHHhCCccccccccccceEEEEeHHHHHhhcccccchhhcccccCCHHHHHHHHHHHH
Confidence 47899999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHhcCCCCCccc
Q psy3321 81 KRLTRECTVSLVGRIKSA 98 (110)
Q Consensus 81 ~a~~~a~~~~g~~~~~~~ 98 (110)
+++.++|+++|+...+-+
T Consensus 501 er~~rEck~~gv~~~~~s 518 (613)
T KOG1233|consen 501 ERMKRECKAQGVTHPVLS 518 (613)
T ss_pred HHHHHHHHhcCCCccccc
Confidence 999999999999876644
No 2
>PF02913 FAD-oxidase_C: FAD linked oxidases, C-terminal domain; InterPro: IPR004113 Some oxygen-dependent oxidoreductases are flavoproteins that contain a covalently bound FAD group which is attached to a histidine via an 8-alpha-(N3-histidyl)-riboflavin linkage. The region around the histidine that binds the FAD group is conserved in these enzymes (see IPR006093 from INTERPRO).; GO: 0003824 catalytic activity, 0050660 flavin adenine dinucleotide binding; PDB: 1WVE_B 1DII_B 1WVF_A 1DIQ_A 2UUU_B 2UUV_A 1W1M_A 1E8H_B 1E0Y_B 1DZN_B ....
Probab=98.51 E-value=2.8e-08 Score=73.26 Aligned_cols=86 Identities=23% Similarity=0.277 Sum_probs=69.3
Q ss_pred CEEEEecChHH-HHhHHH-HHHHHHHHcCCcc----c-CCcccccccccccchhhchHHHHhccCceeeeeccccccCcH
Q psy3321 1 MALLVLGDPED-VKNNED-KIYSIAKRYGGIP----A-GESNGRRGYMLTYIIAYIRDFACDYYFIGDSFETSVPWDKTV 73 (110)
Q Consensus 1 ~~lgfEG~~~~-V~~~~~-~~~~I~~~~GGv~----~-G~~~G~~W~~~rF~~PYLRD~l~~~G~~~DT~ETAv~Ws~v~ 73 (110)
+++.|+|+.++ ++.+.+ .+.++++++|+.. . .+...+.|..-++..||+++.....+...+++|+++||++++
T Consensus 62 llv~~~g~~~~~~~~~~~~~i~~~~~~~~~~~~~~a~~~~~~~~~W~~R~~~~~~~~~~~~~~~~~~~~~dv~vp~~~l~ 141 (248)
T PF02913_consen 62 LLVEFEGSDEEAVEEQLEAEIEEICKKYGGEDVVIADDEEEQERLWAIRRAIMPYLRDAAGRAGPVWDTEDVAVPPSRLP 141 (248)
T ss_dssp EEEECCCHHHCCHHHHHHHHHHHHHCTCTCCEEEEEHCHHCTSTHHHHHHHHCCGGGCSHCTTEEEEEEEEEESCHHHHH
T ss_pred EEEEECCCcHHHHHHHHHHHHHHHHhhcCCceeEEeCCHHHHHhhhhhhhhhcccccccccccCCceeeeeecccchhhh
Confidence 36889999854 666666 7888888888764 1 123457788888888899999999999999999999999999
Q ss_pred HHHHHHHHHHHHH
Q psy3321 74 LLCINVKKRLTRE 86 (110)
Q Consensus 74 ~l~~~V~~a~~~a 86 (110)
++++.+++.+++.
T Consensus 142 ~~~~~~~~~~~~~ 154 (248)
T PF02913_consen 142 EFLREIRALLREY 154 (248)
T ss_dssp HHHHHHHHHHHHC
T ss_pred hHHHhhhhhhhhc
Confidence 9999997666554
No 3
>TIGR00387 glcD glycolate oxidase, subunit GlcD. This protein, the glycolate oxidase GlcD subunit, is similar in sequence to that of several D-lactate dehydrogenases, including that of E. coli. The glycolate oxidase has been found to have some D-lactate dehydrogenase activity.
Probab=97.88 E-value=1.3e-05 Score=66.16 Aligned_cols=80 Identities=16% Similarity=0.157 Sum_probs=61.5
Q ss_pred EEEEecChHHHHhHHHHHHHHHHHcCCccc----C-CcccccccccccchhhchHHHHhccCceeeeeccccccCcHHHH
Q psy3321 2 ALLVLGDPEDVKNNEDKIYSIAKRYGGIPA----G-ESNGRRGYMLTYIIAYIRDFACDYYFIGDSFETSVPWDKTVLLC 76 (110)
Q Consensus 2 ~lgfEG~~~~V~~~~~~~~~I~~~~GGv~~----G-~~~G~~W~~~rF~~PYLRD~l~~~G~~~DT~ETAv~Ws~v~~l~ 76 (110)
++.|+|..++++.+.+++.++++++|+... + +...+.|...++..|++++.. ...+ +.|+|+||+++++++
T Consensus 235 ~v~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~W~~r~~~~~~~~~~~-~~~~---~~d~~vp~~~l~~~~ 310 (413)
T TIGR00387 235 LVEIDGVHEAVERDEEKIEQICRKNGAVDVQIAQDEEERALLWAGRRNAFKAASKLS-PLYL---IEDGTVPRSKLPEAL 310 (413)
T ss_pred EEEecCCcHHHHHHHHHHHHHHHhCCCceEEEeCCHHHHHHHHHHHHHhHHHHHhhC-CCcc---eeEEecCHHHHHHHH
Confidence 578999998999999999999999988533 1 234456888888889998742 2222 467999999999999
Q ss_pred HHHHHHHHH
Q psy3321 77 INVKKRLTR 85 (110)
Q Consensus 77 ~~V~~a~~~ 85 (110)
+.+++.+++
T Consensus 311 ~~~~~~~~~ 319 (413)
T TIGR00387 311 RGIADIARK 319 (413)
T ss_pred HHHHHHHHH
Confidence 998666544
No 4
>PRK11230 glycolate oxidase subunit GlcD; Provisional
Probab=97.37 E-value=0.00022 Score=60.79 Aligned_cols=78 Identities=9% Similarity=0.038 Sum_probs=56.9
Q ss_pred EEEEecChHHHHhHHHHHHHHHHHcCCcccCC-----cccccccccccchhhchHHHHhccCceeeeeccccccCcHHHH
Q psy3321 2 ALLVLGDPEDVKNNEDKIYSIAKRYGGIPAGE-----SNGRRGYMLTYIIAYIRDFACDYYFIGDSFETSVPWDKTVLLC 76 (110)
Q Consensus 2 ~lgfEG~~~~V~~~~~~~~~I~~~~GGv~~G~-----~~G~~W~~~rF~~PYLRD~l~~~G~~~DT~ETAv~Ws~v~~l~ 76 (110)
++.|+|++++++.+.+++.++++++|+..+.- +..+.|..-+...|+++.. ..+++ ..+++|||+++++++
T Consensus 292 l~e~~g~~~~v~~~~~~l~~~~~~~g~~~~~~a~~~~~~~~~W~~R~~~~~~~~~~--~~~~~--~~dv~vP~~~l~~~~ 367 (499)
T PRK11230 292 LCELDGVESDVQEDCERVNDILLKAGATDVRLAQDEAERVRFWAGRKNAFPAVGRI--SPDYY--CMDGTIPRRELPGVL 367 (499)
T ss_pred EEEecCCchHHHHHHHHHHHHHHhcCCceEEEeCCHHHHHHHHHHHHhhHHHHHhh--CCCee--EEeecCChHHHHHHH
Confidence 57889999999999999999999999743321 2234666533456787752 23344 349999999999999
Q ss_pred HHHHHHH
Q psy3321 77 INVKKRL 83 (110)
Q Consensus 77 ~~V~~a~ 83 (110)
+.+++..
T Consensus 368 ~~~~~~~ 374 (499)
T PRK11230 368 EGIARLS 374 (499)
T ss_pred HHHHHHH
Confidence 9997644
No 5
>PLN02805 D-lactate dehydrogenase [cytochrome]
Probab=96.75 E-value=0.0019 Score=56.05 Aligned_cols=82 Identities=15% Similarity=0.077 Sum_probs=53.1
Q ss_pred CEEEEecChHHHHhHHHHHHHHHHHcCCc--ccCCcc---cccccccccchhhchHHHHhccCceeeeeccccccCcHHH
Q psy3321 1 MALLVLGDPEDVKNNEDKIYSIAKRYGGI--PAGESN---GRRGYMLTYIIAYIRDFACDYYFIGDSFETSVPWDKTVLL 75 (110)
Q Consensus 1 ~~lgfEG~~~~V~~~~~~~~~I~~~~GGv--~~G~~~---G~~W~~~rF~~PYLRD~l~~~G~~~DT~ETAv~Ws~v~~l 75 (110)
+++.|+|++++++.+.+.+.+|++++|+. .+.+.+ .+.|. .|-.....-- ...-+....+.+++|||++++++
T Consensus 366 Ll~e~~g~~~~~~~~~~~~~~i~~~~g~~~~~~a~~~~e~~~lW~-~R~~~~~~~~-~~~~~~~~~~~DvaVP~s~L~e~ 443 (555)
T PLN02805 366 LMFEFIGTEAYAREQTLIVQKIASKHNGSDFVFAEEPEAKKELWK-IRKEALWACF-AMEPKYEAMITDVCVPLSHLAEL 443 (555)
T ss_pred EEEEEecCcHHHHHHHHHHHHHHHhCCCceEEEeCCHHHHHHHHH-HHHHHHHHHh-hcCCCCceeEEEEEEEHHHHHHH
Confidence 36788999989999999999999999984 222222 33465 3322211100 01112333467899999999999
Q ss_pred HHHHHHHHH
Q psy3321 76 CINVKKRLT 84 (110)
Q Consensus 76 ~~~V~~a~~ 84 (110)
++.+++.+.
T Consensus 444 i~~~~~~~~ 452 (555)
T PLN02805 444 ISRSKKELD 452 (555)
T ss_pred HHHHHHHHH
Confidence 999866553
No 6
>COG3286 Uncharacterized protein conserved in archaea [Function unknown]
Probab=92.48 E-value=0.49 Score=36.84 Aligned_cols=84 Identities=13% Similarity=0.163 Sum_probs=59.7
Q ss_pred EEEecChHHHHhHHHHHHHHHHHcCCcccCCcccc-c----ccccccchh--hchHHHHhccCcee----eeeccccccC
Q psy3321 3 LLVLGDPEDVKNNEDKIYSIAKRYGGIPAGESNGR-R----GYMLTYIIA--YIRDFACDYYFIGD----SFETSVPWDK 71 (110)
Q Consensus 3 lgfEG~~~~V~~~~~~~~~I~~~~GGv~~G~~~G~-~----W~~~rF~~P--YLRD~l~~~G~~~D----T~ETAv~Ws~ 71 (110)
+=..|.+++++...+.+.++.+..-+..-+...|- . -+...=+.| -|+|.|--+|+=++ -++|++||+.
T Consensus 41 V~v~G~~~eireair~irel~~~vr~r~~~~~~~ly~l~~~~~~a~p~Vp~~vl~daLk~~GyrVevr~~~l~T~ap~~e 120 (204)
T COG3286 41 VNVFGTKDEIREAIRAIRELHRRVRRRLYPDRQGLYTLYRIFEEASPNVPPDVLIDALKLLGYRVEVRGGELKTNAPWSE 120 (204)
T ss_pred EEEecchHHHHHHHHHHHHHHHHHHhhhccCccceEeeHhHHHhhcCCCCHHHHHHHHHhCCceEEeeCceeecCCCHHH
Confidence 34578889999999999988887776443332221 1 111222222 89999999998765 4899999999
Q ss_pred cHHHHHHHHHHHHHH
Q psy3321 72 TVLLCINVKKRLTRE 86 (110)
Q Consensus 72 v~~l~~~V~~a~~~a 86 (110)
+.++.+++-+..+.+
T Consensus 121 v~E~vreLse~~~E~ 135 (204)
T COG3286 121 VVELVRELSEVYREA 135 (204)
T ss_pred HHHHHHHHHHHHHHH
Confidence 999999887766665
No 7
>PF09840 DUF2067: Uncharacterized protein conserved in archaea (DUF2067); InterPro: IPR019202 This family of archaeal proteins, have no known function.
Probab=77.52 E-value=8.9 Score=29.29 Aligned_cols=83 Identities=13% Similarity=0.125 Sum_probs=60.1
Q ss_pred EEEecChHHHHhHHHHHHHHHHHcCCcccCCcccc---cccc----cccchhhchHHHHhccCce----eeeeccccccC
Q psy3321 3 LLVLGDPEDVKNNEDKIYSIAKRYGGIPAGESNGR---RGYM----LTYIIAYIRDFACDYYFIG----DSFETSVPWDK 71 (110)
Q Consensus 3 lgfEG~~~~V~~~~~~~~~I~~~~GGv~~G~~~G~---~W~~----~rF~~PYLRD~l~~~G~~~----DT~ETAv~Ws~ 71 (110)
+=..|++.+++...+.+.++.+...+.+-+.+.-+ .+.. ..|..|-|-|.|--.|+=+ +.+.|+++|+.
T Consensus 38 I~i~G~~~eike~~~~Ik~~~~~vr~k~~~~g~~~y~l~~i~r~a~~~vp~d~L~~~L~~~G~~ae~~~~~i~T~a~~ee 117 (190)
T PF09840_consen 38 IEIQGYEKEIKEAIRRIKELVRRVRSKYNKRGLYRYSLDDIFREAGYPVPPDLLVDALKLLGYKAEYREDVIKTDAPLEE 117 (190)
T ss_pred EEEecChHHHHHHHHHHHHHHHHHHHHhccCCceEEcHHHHHHHcCCCCCHHHHHHHHHhCCCeeEEeCCeEEecCCHHH
Confidence 34568888999998888888877666332221111 1111 5677779999999999866 57999999999
Q ss_pred cHHHHHHHHHHHHH
Q psy3321 72 TVLLCINVKKRLTR 85 (110)
Q Consensus 72 v~~l~~~V~~a~~~ 85 (110)
+.++.+.+.++...
T Consensus 118 v~~l~~~Lse~~~e 131 (190)
T PF09840_consen 118 VVELAERLSEIYKE 131 (190)
T ss_pred HHHHHHHHHHHHHH
Confidence 99999999776664
No 8
>COG1071 AcoA Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, alpha subunit [Energy production and conversion]
Probab=56.35 E-value=33 Score=28.80 Aligned_cols=83 Identities=10% Similarity=0.061 Sum_probs=56.5
Q ss_pred ecCh-HHHHhHHHHHHHHHHHcCCccc--------CC----cc---------cccccccccchhhchHHHHhccCceeee
Q psy3321 6 LGDP-EDVKNNEDKIYSIAKRYGGIPA--------GE----SN---------GRRGYMLTYIIAYIRDFACDYYFIGDSF 63 (110)
Q Consensus 6 EG~~-~~V~~~~~~~~~I~~~~GGv~~--------G~----~~---------G~~W~~~rF~~PYLRD~l~~~G~~~DT~ 63 (110)
.|.+ -.|-...+.|.+.+++.+|=.| |. .+ -+.|.. |=-++-||++|.+.|++.|
T Consensus 229 DG~D~~avy~~~~~A~e~AR~g~GPtLIE~~tYR~~~HS~sDd~~~YRskeE~~~~~~-~DPi~r~~~~L~~~g~~se-- 305 (358)
T COG1071 229 DGNDVLAVYEAAKEAVERARAGEGPTLIEAVTYRYGGHSTSDDPSKYRSKEEVEEWKK-RDPIVRLRKYLIEAGILSE-- 305 (358)
T ss_pred CCcCHHHHHHHHHHHHHHHHcCCCCEEEEEEEeecCCCCCCCCccccCCHHHHHHHhc-cChHHHHHHHHHHcCCCCH--
Confidence 4555 4478888999999999888211 11 11 134555 3334489999999999887
Q ss_pred eccccccCcHHHHHHHHHHHHHHHHhcCCCCCcc
Q psy3321 64 ETSVPWDKTVLLCINVKKRLTRECTVSLVGRIKS 97 (110)
Q Consensus 64 ETAv~Ws~v~~l~~~V~~a~~~a~~~~g~~~~~~ 97 (110)
..+.++.+.+++.|.++++.....+.|+
T Consensus 306 ------e~~~~i~~e~~~~V~ea~e~a~~~p~P~ 333 (358)
T COG1071 306 ------EELEAIEAEAKAEVDEAVEFAEASPYPD 333 (358)
T ss_pred ------HHHHHHHHHHHHHHHHHHHHHHhCCCCC
Confidence 6778888888888888655544444444
No 9
>PF14257 DUF4349: Domain of unknown function (DUF4349)
Probab=55.99 E-value=26 Score=27.09 Aligned_cols=77 Identities=19% Similarity=0.296 Sum_probs=55.3
Q ss_pred HHHHhHHHHHHHHHHHcCCcccCCcc-------cccccccccchh--hchHHHHhccCceeeeeccccccCcHHHHHHHH
Q psy3321 10 EDVKNNEDKIYSIAKRYGGIPAGESN-------GRRGYMLTYIIA--YIRDFACDYYFIGDSFETSVPWDKTVLLCINVK 80 (110)
Q Consensus 10 ~~V~~~~~~~~~I~~~~GGv~~G~~~-------G~~W~~~rF~~P--YLRD~l~~~G~~~DT~ETAv~Ws~v~~l~~~V~ 80 (110)
++++...+++.++++++||...-+.. +.......+++| .+.+++-+.+=+.....-.+.=.++..-|..+.
T Consensus 59 ~d~~~a~~~i~~~~~~~gG~i~~~~~~~~~~~~~~~~~~ltiRVP~~~~~~~l~~l~~~g~v~~~~~~~~DvT~~y~D~~ 138 (262)
T PF14257_consen 59 KDVEKAVKKIENLVESYGGYIESSSSSSSGGSDDERSASLTIRVPADKFDSFLDELSELGKVTSRNISSEDVTEQYVDLE 138 (262)
T ss_pred CCHHHHHHHHHHHHHHcCCEEEEEeeecccCCCCcceEEEEEEECHHHHHHHHHHHhccCceeeeeccccchHHHHHHHH
Confidence 45778889999999999996554332 356677788888 777777777666666666666677888887776
Q ss_pred HHHHHH
Q psy3321 81 KRLTRE 86 (110)
Q Consensus 81 ~a~~~a 86 (110)
.+++.-
T Consensus 139 arl~~l 144 (262)
T PF14257_consen 139 ARLKNL 144 (262)
T ss_pred HHHHHH
Confidence 665543
No 10
>PF13590 DUF4136: Domain of unknown function (DUF4136)
Probab=53.62 E-value=16 Score=25.05 Aligned_cols=30 Identities=17% Similarity=0.241 Sum_probs=25.4
Q ss_pred HHHHHHHHHHHHHHHhcCCCCCccccccccc
Q psy3321 74 LLCINVKKRLTRECTVSLVGRIKSARADFIL 104 (110)
Q Consensus 74 ~l~~~V~~a~~~a~~~~g~~~~~~~~~~~~~ 104 (110)
...+.++++|.++|.++|.... .+.+||++
T Consensus 35 ~~~~~i~~~v~~~L~~~G~~~~-~~~aDl~V 64 (151)
T PF13590_consen 35 LDDQRIQDAVEQELAAKGYRRV-PENADLLV 64 (151)
T ss_pred HHHHHHHHHHHHHHHHCCCeec-ccCCCEEE
Confidence 3456899999999999999988 67889876
No 11
>cd00248 Mth938-like Mth938-like domain. The members of this family include: Mth938, 2P1, Xcr35, Rpa2829, and several uncharacterized sequences. Mth938 is a hypothetical protein encoded by the Methanobacterium thermoautotrophicum (Mth) genome. This protein crystallizes as a dimer, although it is monomeric in solution, with one disulfide bond in each monomer. 2P1 is a partially characterized nuclear protein which is homologous to E3-3 from rat and known to be alternately spliced. Xcr35 and Rpa2829 are hypothetical proteins of unknown function from the Xanthomonas campestris and Rhodopseudomonas palustris genomes, respectively, for which the crystal structures have been determined.
Probab=48.06 E-value=12 Score=25.70 Aligned_cols=26 Identities=8% Similarity=-0.017 Sum_probs=23.5
Q ss_pred ccccchhhchHHHHhccCceeeeecc
Q psy3321 41 MLTYIIAYIRDFACDYYFIGDSFETS 66 (110)
Q Consensus 41 ~~rF~~PYLRD~l~~~G~~~DT~ETA 66 (110)
+.+|-.|-+++.|.++|+-+|.+.|.
T Consensus 63 ~~~~~~~~~~~~l~~~gI~vE~m~T~ 88 (109)
T cd00248 63 EIAFLPRALRAALRAAGIGVEVMSTG 88 (109)
T ss_pred CCCcCCHHHHHHHHHcCCeEEEeCcH
Confidence 44688899999999999999999997
No 12
>cd07947 DRE_TIM_Re_CS Clostridium kluyveri Re-citrate synthase and related proteins, catalytic TIM barrel domain. Re-citrate synthase (Re-CS) is a Clostridium kluyveri enzyme that converts acetyl-CoA and oxaloacetate to citrate. In most organisms, this reaction is catalyzed by Si-citrate synthase which is Si-face stereospecific with respect to C-2 of oxaloacetate, and phylogenetically unrelated to Re-citrate synthase. Re-citrate synthase is also found in a few other strictly anaerobic organisms. This family belongs to the DRE-TIM metallolyase superfamily. DRE-TIM metallolyases include 2-isopropylmalate synthase (IPMS), alpha-isopropylmalate synthase (LeuA), 3-hydroxy-3-methylglutaryl-CoA lyase, homocitrate synthase, citramalate synthase, 4-hydroxy-2-oxovalerate aldolase, re-citrate synthase, transcarboxylase 5S, pyruvate carboxylase, AksA, and FrbC. These members all share a conserved triose-phosphate isomerase (TIM) barrel domain consisting of a core beta(8)-alpha(8) motif with
Probab=41.26 E-value=59 Score=25.92 Aligned_cols=71 Identities=10% Similarity=0.068 Sum_probs=40.8
Q ss_pred hHHHHhHHHHHHHHHHHcCCcccCCccccccccc--ccchhhchHHHHh---ccC-----ceeeeecccccc------Cc
Q psy3321 9 PEDVKNNEDKIYSIAKRYGGIPAGESNGRRGYML--TYIIAYIRDFACD---YYF-----IGDSFETSVPWD------KT 72 (110)
Q Consensus 9 ~~~V~~~~~~~~~I~~~~GGv~~G~~~G~~W~~~--rF~~PYLRD~l~~---~G~-----~~DT~ETAv~Ws------~v 72 (110)
.+++-...+.+.+.++++|- .+--.....++.. -+..+|+.+.+-. .|. ++||...++|++ ++
T Consensus 110 ~~e~l~~~~~~v~~a~~~g~-~v~~~~ed~~r~d~~~~v~~~~~~~~~~~~~~G~~~~i~l~DTvG~a~P~~~~~~p~~v 188 (279)
T cd07947 110 REEAMEKYLEIVEEALDHGI-KPRCHLEDITRADIYGFVLPFVNKLMKLSKESGIPVKIRLCDTLGYGVPYPGASLPRSV 188 (279)
T ss_pred HHHHHHHHHHHHHHHHHCCC-eEEEEEEcccCCCcccchHHHHHHHHHHHHHCCCCEEEEeccCCCcCCccccccchHHH
Confidence 45555566677778888864 2222222233331 2334577765552 564 469999999995 45
Q ss_pred HHHHHHHH
Q psy3321 73 VLLCINVK 80 (110)
Q Consensus 73 ~~l~~~V~ 80 (110)
..+.+.++
T Consensus 189 ~~l~~~l~ 196 (279)
T cd07947 189 PKIIYGLR 196 (279)
T ss_pred HHHHHHHH
Confidence 55555554
No 13
>PLN03220 uncharacterized protein; Provisional
Probab=39.27 E-value=27 Score=24.61 Aligned_cols=16 Identities=0% Similarity=0.144 Sum_probs=12.6
Q ss_pred ccccccchh--hchHHHH
Q psy3321 39 GYMLTYIIA--YIRDFAC 54 (110)
Q Consensus 39 W~~~rF~~P--YLRD~l~ 54 (110)
+...||.+| ||.+.++
T Consensus 50 ~e~kRFVVPv~yL~hP~F 67 (105)
T PLN03220 50 MEKKRFVVPISFLNHPSF 67 (105)
T ss_pred ccceEEEEEHHHcCChHH
Confidence 467999999 8887654
No 14
>cd05560 Xcc1710_like Xcc1710_like family, specific to proteobacteria. Xcc1710 is a hypothetical protein from Xanthomonas campestris pv. campestris str. ATCC 33913, similar to Mth938, a hypothetical protein encoded by the Methanobacterium thermoautotrophicum (Mth) genome. Their three-dimensional structures have been determined, but their functions are unknown.
Probab=39.17 E-value=19 Score=24.75 Aligned_cols=28 Identities=7% Similarity=-0.140 Sum_probs=24.6
Q ss_pred ccccccchhhchHHHHhccCceeeeecc
Q psy3321 39 GYMLTYIIAYIRDFACDYYFIGDSFETS 66 (110)
Q Consensus 39 W~~~rF~~PYLRD~l~~~G~~~DT~ETA 66 (110)
+...+|--|-+++.|.++|+.+|.+.|.
T Consensus 61 G~~~~~~~~~~~~~l~~~gi~vE~m~T~ 88 (109)
T cd05560 61 GERQRFPPPALLAPLLARGIGVEVMDTQ 88 (109)
T ss_pred CCCCCcCCHHHHHHHHHcCCeEEEECHH
Confidence 4456788899999999999999999997
No 15
>KOG0496|consensus
Probab=39.16 E-value=24 Score=31.90 Aligned_cols=64 Identities=20% Similarity=0.210 Sum_probs=47.0
Q ss_pred HHHHhHHHHHHH----HHHHcCC-cccCCcccccccccccchhhchHHHHhccCceeeeeccccccCcH
Q psy3321 10 EDVKNNEDKIYS----IAKRYGG-IPAGESNGRRGYMLTYIIAYIRDFACDYYFIGDSFETSVPWDKTV 73 (110)
Q Consensus 10 ~~V~~~~~~~~~----I~~~~GG-v~~G~~~G~~W~~~rF~~PYLRD~l~~~G~~~DT~ETAv~Ws~v~ 73 (110)
.+++...+++.. +..+.|| +.+.+---+-..-.|+-.++-|..+....+++.++.|.++|=.+-
T Consensus 142 ~~~~~~~~~iv~~mk~L~~~qGGPIIl~QIENEYG~~~~~~~~~~k~y~~w~a~m~~~l~~gvpw~mCk 210 (649)
T KOG0496|consen 142 AEMERWTTKIVPMMKKLFASQGGPIILVQIENEYGNYLRALGAEGKSYLKWAAVLATSLGTGVPWVMCK 210 (649)
T ss_pred HHHHHHHHHHHHHHHHHHhhcCCCEEEEEeechhhHHHHHHHHHHHHhhccceEEEEecCCCCceeEec
Confidence 456666666655 8888888 444442224446777778899999999999999999999996543
No 16
>TIGR00510 lipA lipoate synthase. The family shows strong sequence conservation.
Probab=38.08 E-value=42 Score=27.19 Aligned_cols=54 Identities=17% Similarity=0.262 Sum_probs=36.3
Q ss_pred CEEEEecChHHHHhHHHHHHHHHHHcCC--cccCCc--c-cccccccccchh----hchHHHHhccC
Q psy3321 1 MALLVLGDPEDVKNNEDKIYSIAKRYGG--IPAGES--N-GRRGYMLTYIIA----YIRDFACDYYF 58 (110)
Q Consensus 1 ~~lgfEG~~~~V~~~~~~~~~I~~~~GG--v~~G~~--~-G~~W~~~rF~~P----YLRD~l~~~G~ 58 (110)
+++|| |..+ ....+..+.+++.|- +.+|+. | -..+.-.||..| ++|+..+++|+
T Consensus 213 iIVGl-GETe---ee~~etl~~Lrelg~d~v~igqYl~p~~~~~~v~~~~~p~~f~~~~~~a~~~gf 275 (302)
T TIGR00510 213 IMVGL-GETN---EEIKQTLKDLRDHGVTMVTLGQYLRPSRRHLPVKRYVSPEEFDYYRSVALEMGF 275 (302)
T ss_pred EEEEC-CCCH---HHHHHHHHHHHhcCCCEEEeecccCCCCCCCccccCCCHHHHHHHHHHHHHcCC
Confidence 47899 7543 344555566666666 344552 3 357888899888 78888888887
No 17
>KOG4179|consensus
Probab=35.37 E-value=15 Score=32.20 Aligned_cols=20 Identities=35% Similarity=0.729 Sum_probs=16.0
Q ss_pred HHHHhccCceeeeeccccccC
Q psy3321 51 DFACDYYFIGDSFETSVPWDK 71 (110)
Q Consensus 51 D~l~~~G~~~DT~ETAv~Ws~ 71 (110)
.+--+-|++.|| |||+.|||
T Consensus 510 hytg~~gylsdt-ets~~w~~ 529 (568)
T KOG4179|consen 510 HYTGDSGYLSDT-ETSQQWDN 529 (568)
T ss_pred eecCCCccccCc-cccccccc
Confidence 344577899888 99999995
No 18
>KOG2872|consensus
Probab=32.77 E-value=55 Score=27.45 Aligned_cols=29 Identities=14% Similarity=0.290 Sum_probs=17.6
Q ss_pred HHHHHHHHHcCCcccCCcccccccccccchhhchH
Q psy3321 17 DKIYSIAKRYGGIPAGESNGRRGYMLTYIIAYIRD 51 (110)
Q Consensus 17 ~~~~~I~~~~GGv~~G~~~G~~W~~~rF~~PYLRD 51 (110)
+++.+|..+++|- ++. +.| .+|..||||+
T Consensus 207 Aq~lQiFeSwage-Lsp---e~f--~e~s~PYl~~ 235 (359)
T KOG2872|consen 207 AQALQIFESWAGE-LSP---EDF--EEFSLPYLRQ 235 (359)
T ss_pred HHHHHHHHHhccc-CCH---HHH--HHhhhHHHHH
Confidence 3455666666654 222 233 5789999994
No 19
>COG3010 NanE Putative N-acetylmannosamine-6-phosphate epimerase [Carbohydrate transport and metabolism]
Probab=30.50 E-value=89 Score=24.87 Aligned_cols=71 Identities=6% Similarity=-0.105 Sum_probs=50.7
Q ss_pred EEEec-ChHHHHhHHHHHHHHHHHcCCcccCCcccccccccccchhhchHHHHhccCceeeeeccccccCcHHHHHHHHH
Q psy3321 3 LLVLG-DPEDVKNNEDKIYSIAKRYGGIPAGESNGRRGYMLTYIIAYIRDFACDYYFIGDSFETSVPWDKTVLLCINVKK 81 (110)
Q Consensus 3 lgfEG-~~~~V~~~~~~~~~I~~~~GGv~~G~~~G~~W~~~rF~~PYLRD~l~~~G~~~DT~ETAv~Ws~v~~l~~~V~~ 81 (110)
-||++ +..+.+.-..-+.++++ .|-... .++||+.|-+-...+++|..+=|.=+|.| |....+....+
T Consensus 156 sGYT~~~~~~~~pDf~lvk~l~~-~~~~vI--------AEGr~~tP~~Ak~a~~~Ga~aVvVGsAIT--Rp~~It~~F~~ 224 (229)
T COG3010 156 SGYTGYTEKPTEPDFQLVKQLSD-AGCRVI--------AEGRYNTPEQAKKAIEIGADAVVVGSAIT--RPEEITQWFVD 224 (229)
T ss_pred ccccCCCCCCCCCcHHHHHHHHh-CCCeEE--------eeCCCCCHHHHHHHHHhCCeEEEECcccC--CHHHHHHHHHH
Confidence 36777 44455556666666665 444433 46899999999999999999999999987 66666666655
Q ss_pred HHH
Q psy3321 82 RLT 84 (110)
Q Consensus 82 a~~ 84 (110)
+++
T Consensus 225 ~ik 227 (229)
T COG3010 225 AIK 227 (229)
T ss_pred HHh
Confidence 554
No 20
>PLN02269 Pyruvate dehydrogenase E1 component subunit alpha
Probab=28.20 E-value=2e+02 Score=23.88 Aligned_cols=76 Identities=12% Similarity=-0.081 Sum_probs=47.5
Q ss_pred EecCh-HHHHhHHHHHHHHHHHcCCcc--------c----CCcc---------cccccccccchhhchHHHHhccCceee
Q psy3321 5 VLGDP-EDVKNNEDKIYSIAKRYGGIP--------A----GESN---------GRRGYMLTYIIAYIRDFACDYYFIGDS 62 (110)
Q Consensus 5 fEG~~-~~V~~~~~~~~~I~~~~GGv~--------~----G~~~---------G~~W~~~rF~~PYLRD~l~~~G~~~DT 62 (110)
..|.+ ..|....+.+.+.+++ +|-. . +..+ -+.|...+=-+..+|+.|.+.|++-+
T Consensus 227 VDG~D~~av~~a~~~A~~~aR~-~gP~lIe~~tyR~~gHs~~D~~~~YR~~~E~~~~~~~~DPi~~~~~~L~~~g~~te- 304 (362)
T PLN02269 227 VDGMDVLAVKQACKFAKEHALS-NGPIVLEMDTYRYHGHSMSDPGSTYRTRDEISGVRQERDPIERVRKLLLAHELATE- 304 (362)
T ss_pred ECCCCHHHHHHHHHHHHHHHHh-CCCEEEEEecCcCCCcCCCCCCcccCCHHHHHHHHhCCCHHHHHHHHHHHcCCCCH-
Confidence 34554 4466667777777888 6611 1 1111 12455445445588999999999876
Q ss_pred eeccccccCcHHHHHHHHHHHHHHHHh
Q psy3321 63 FETSVPWDKTVLLCINVKKRLTRECTV 89 (110)
Q Consensus 63 ~ETAv~Ws~v~~l~~~V~~a~~~a~~~ 89 (110)
+.+.++-+.+++.|.++++.
T Consensus 305 -------~e~~~i~~e~~~~v~~a~~~ 324 (362)
T PLN02269 305 -------AELKDIEKEIRKEVDDAVAK 324 (362)
T ss_pred -------HHHHHHHHHHHHHHHHHHHH
Confidence 55666667777777776544
No 21
>cd07045 BMC_CcmK_like Carbon dioxide concentrating mechanism K (CcmK)-like proteins, Bacterial Micro-Compartment (BMC) domain. Bacterial micro-compartments are primitive protein-based organelles that sequester specific metabolic pathways in bacterial cells. The prototypical bacterial microcompartment is the carboxysome shell, a bacterial polyhedral organelle which increase the efficiency of CO2 fixation by encapsulating RuBisCO and carbonic anhydrase. They can be divided into two types: alpha-type carboxysomes (alpha-cyanobacteria and proteobacteria) and beta-type carboxysomes (beta-cyanobacteria). Potential functional differences between the two types are not yet fully understood. In addition to these proteins there are several homologous shell proteins including those found in pdu organelles involved in coenzyme B12-dependent degradation of 1,2-propanediol and eut organelles involved in the cobalamin-dependent degradation of ethanolamine. Structure evidence shows that several carbox
Probab=27.18 E-value=95 Score=20.42 Aligned_cols=28 Identities=25% Similarity=0.329 Sum_probs=24.3
Q ss_pred EEEEecChHHHHhHHHHHHHHHHHcCCc
Q psy3321 2 ALLVLGDPEDVKNNEDKIYSIAKRYGGI 29 (110)
Q Consensus 2 ~lgfEG~~~~V~~~~~~~~~I~~~~GGv 29 (110)
++.+.|+-+.|+...+.+.+.++++|.+
T Consensus 40 ~vii~GdvsaV~~Av~a~~~~~~~~~~~ 67 (84)
T cd07045 40 TVKITGDVAAVKAAVEAGAAAAERIGEL 67 (84)
T ss_pred EEEEEEcHHHHHHHHHHHHHHHhccCcE
Confidence 6789999999999999999999887653
No 22
>PF12738 PTCB-BRCT: twin BRCT domain; PDB: 3PA6_A 3KTF_C 2WT8_C 3EF1_A 3EF0_A.
Probab=24.66 E-value=30 Score=20.64 Aligned_cols=29 Identities=10% Similarity=0.191 Sum_probs=17.1
Q ss_pred EEEEecChHHHHhHHHHHHHHHHHcCCcccCC
Q psy3321 2 ALLVLGDPEDVKNNEDKIYSIAKRYGGIPAGE 33 (110)
Q Consensus 2 ~lgfEG~~~~V~~~~~~~~~I~~~~GGv~~G~ 33 (110)
++.|.|-...- +.++.+++..+||.+...
T Consensus 2 ~i~~sg~~~~~---~~~l~~~i~~~Gg~~~~~ 30 (63)
T PF12738_consen 2 VICFSGFSGKE---RSQLRKLIEALGGKYSKD 30 (63)
T ss_dssp EEEEEEB-TTT---CCHHHHHHHCTT-EEESS
T ss_pred EEEECCCCHHH---HHHHHHHHHHCCCEEecc
Confidence 45555543222 667778999999976543
No 23
>cd00886 MogA_MoaB MogA_MoaB family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF) an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea, and eukaryotes. MoCF contains a tricyclic pyranopterin, termed molybdopterin (MPT). MogA, together with MoeA, is responsible for the metal incorporation into MPT, the third step in MoCF biosynthesis. The plant homolog Cnx1 is a MoeA-MogA fusion protein. The mammalian homolog gephyrin is a MogA-MoeA fusion protein, that plays a critical role in postsynaptic anchoring of inhibitory glycine receptors and major GABAa receptor subtypes. In contrast, MoaB shows high similarity to MogA, but little is known about its physiological role. All well studied members of this family form highly stable trimers.
Probab=24.56 E-value=1.2e+02 Score=21.57 Aligned_cols=38 Identities=3% Similarity=-0.178 Sum_probs=27.4
Q ss_pred cchhhchHHHHhccCceeeeeccccccCcHHHHHHHHHHH
Q psy3321 44 YIIAYIRDFACDYYFIGDSFETSVPWDKTVLLCINVKKRL 83 (110)
Q Consensus 44 F~~PYLRD~l~~~G~~~DT~ETAv~Ws~v~~l~~~V~~a~ 83 (110)
-+.|+|...|.++|+ +..+..+--|+...+.+.+++++
T Consensus 20 ~n~~~l~~~l~~~G~--~v~~~~~v~Dd~~~i~~~l~~~~ 57 (152)
T cd00886 20 RSGPALVELLEEAGH--EVVAYEIVPDDKDEIREALIEWA 57 (152)
T ss_pred chHHHHHHHHHHcCC--eeeeEEEcCCCHHHHHHHHHHHH
Confidence 357889999999884 66666666688777776665544
No 24
>cd05125 Mth938_2P1-like Mth938_2P1-like domain. This model contains sequences that are similar to 2P1, a partially characterized nuclear protein, which is homologous to E3-3 from rat and known to be alternatively spliced. Its function is unknown. This family is part of the Mth938 family, for which structures, but no functional data are available.
Probab=24.17 E-value=54 Score=22.90 Aligned_cols=34 Identities=9% Similarity=0.053 Sum_probs=27.1
Q ss_pred cccCCcccccccccccchhhchHHHHhccCceeeeeccc
Q psy3321 29 IPAGESNGRRGYMLTYIIAYIRDFACDYYFIGDSFETSV 67 (110)
Q Consensus 29 v~~G~~~G~~W~~~rF~~PYLRD~l~~~G~~~DT~ETAv 67 (110)
+.+|.+. ..+|-.|-+++.|.++|+-+|.+.|..
T Consensus 58 liiGtG~-----~~~~~~~~~~~~l~~~gi~vevm~T~~ 91 (114)
T cd05125 58 LVIGTGR-----KSRPLSPELRKYFKKLGIAVEVVDTRN 91 (114)
T ss_pred EEEccCC-----CCCcCCHHHHHHHHHcCCEEEEECHHH
Confidence 4555543 367889999999999999999999953
No 25
>cd07963 Anticodon_Ia_Cys Anticodon-binding domain of cysteinyl tRNA synthetases. This domain is found in cysteinyl tRNA synthetases (CysRS), which belong to the class Ia aminoacyl tRNA synthetases. It lies C-terminal to the catalytic core domain, and recognizes and specifically binds to the tRNA anticodon. CysRS catalyzes the transfer of cysteine to the 3'-end of its tRNA.
Probab=23.71 E-value=49 Score=23.44 Aligned_cols=27 Identities=22% Similarity=0.234 Sum_probs=22.2
Q ss_pred cchh-hchHHHHhccCceeeeecccccc
Q psy3321 44 YIIA-YIRDFACDYYFIGDSFETSVPWD 70 (110)
Q Consensus 44 F~~P-YLRD~l~~~G~~~DT~ETAv~Ws 70 (110)
|... .|||.|..+||.++.----++|.
T Consensus 128 f~~AD~IRd~L~~~Gi~i~Dt~~Gt~w~ 155 (156)
T cd07963 128 WAEADRIRDELAAQGIILEDSPEGTTWR 155 (156)
T ss_pred HHHHHHHHHHHHHCCcEEEECCCCceee
Confidence 7766 99999999999998765566775
No 26
>TIGR00177 molyb_syn molybdenum cofactor synthesis domain. The Drosophila protein cinnamon, the Arabidopsis protein cnx1, and rat protein gephyrin each have one domain like MoeA and one like MoaB and Mog. These domains are, however, distantly related to each other, as captured by this model. Gephyrin is unusual in that it seems to be a tubulin-binding neuroprotein involved in the clustering of both blycine receptors and GABA receptors, rather than a protein of molybdenum cofactor biosynthesis.
Probab=23.69 E-value=1.3e+02 Score=21.05 Aligned_cols=40 Identities=8% Similarity=-0.055 Sum_probs=28.3
Q ss_pred cccchhhchHHHHhccCceeeeeccccccCcHHHHHHHHHHH
Q psy3321 42 LTYIIAYIRDFACDYYFIGDSFETSVPWDKTVLLCINVKKRL 83 (110)
Q Consensus 42 ~rF~~PYLRD~l~~~G~~~DT~ETAv~Ws~v~~l~~~V~~a~ 83 (110)
---+.|+|+..|.++|+ +..+..+--|+...+.+.+++++
T Consensus 25 ~d~n~~~l~~~l~~~G~--~v~~~~~v~Dd~~~i~~~l~~~~ 64 (144)
T TIGR00177 25 YDSNGPLLAALLEEAGF--NVSRLGIVPDDPEEIREILRKAV 64 (144)
T ss_pred EeCcHHHHHHHHHHCCC--eEEEEeecCCCHHHHHHHHHHHH
Confidence 34568999999999984 55556666678777776665543
No 27
>TIGR03182 PDH_E1_alph_y pyruvate dehydrogenase E1 component, alpha subunit. Members of this protein family are the alpha subunit of the E1 component of pyruvate dehydrogenase (PDH). This model represents one branch of a larger family that E1-alpha proteins from 2-oxoisovalerate dehydrogenase, acetoin dehydrogenase, another PDH clade, etc.
Probab=23.41 E-value=2.8e+02 Score=22.25 Aligned_cols=76 Identities=11% Similarity=-0.025 Sum_probs=44.8
Q ss_pred EecCh-HHHHhHHHHHHHHHHHcCCccc--------CC-c-----------ccccccccccchhhchHHHHhccCceeee
Q psy3321 5 VLGDP-EDVKNNEDKIYSIAKRYGGIPA--------GE-S-----------NGRRGYMLTYIIAYIRDFACDYYFIGDSF 63 (110)
Q Consensus 5 fEG~~-~~V~~~~~~~~~I~~~~GGv~~--------G~-~-----------~G~~W~~~rF~~PYLRD~l~~~G~~~DT~ 63 (110)
.+|.+ ..|....+.+.+.+++.+|-.+ +. . .-+.|.. |=-++.+|+.|.+.|++-+.
T Consensus 201 Vdg~d~~av~~a~~~A~~~ar~~~gP~lIe~~t~R~~gHs~~D~~~Yr~~~e~~~~~~-~dPi~~~~~~L~~~g~~~~~- 278 (315)
T TIGR03182 201 VDGMDVLAVREAAKEAVERARSGKGPILLEMKTYRFRGHSMSDPAKYRSKEEVEEWRK-RDPIEKLKARLIEQGIASEE- 278 (315)
T ss_pred ECCCCHHHHHHHHHHHHHHHHccCCCEEEEEeCCcCCCCCCCCccccCCHHHHHHHHh-cCHHHHHHHHHHHCCCCCHH-
Confidence 34544 3466667777777777766211 11 1 1123442 22234888999999998763
Q ss_pred eccccccCcHHHHHHHHHHHHHHHHh
Q psy3321 64 ETSVPWDKTVLLCINVKKRLTRECTV 89 (110)
Q Consensus 64 ETAv~Ws~v~~l~~~V~~a~~~a~~~ 89 (110)
.+.++.+.+++.+.++++.
T Consensus 279 -------~~~~~~~~~~~~v~~a~~~ 297 (315)
T TIGR03182 279 -------ELKEIDKEVRAEVEEAVEF 297 (315)
T ss_pred -------HHHHHHHHHHHHHHHHHHH
Confidence 4556666666666666554
No 28
>PF13368 Toprim_C_rpt: Topoisomerase C-terminal repeat
Probab=22.94 E-value=23 Score=21.95 Aligned_cols=16 Identities=6% Similarity=-0.047 Sum_probs=12.0
Q ss_pred cccccchhhchHHHHhc
Q psy3321 40 YMLTYIIAYIRDFACDY 56 (110)
Q Consensus 40 ~~~rF~~PYLRD~l~~~ 56 (110)
..+|| +||+.+-..+.
T Consensus 10 ~~GRf-GPYv~~g~~~~ 25 (61)
T PF13368_consen 10 KNGRF-GPYVKHGKKNA 25 (61)
T ss_pred eECCC-CceEEECCccc
Confidence 67899 99997665443
No 29
>PF00676 E1_dh: Dehydrogenase E1 component; InterPro: IPR001017 This entry includes a number of dehydrogenases all of which use thiamine pyrophosphate as a cofactor and are members of a multienzyme complex. Pyruvate dehydrogenase (1.2.4.1 from EC), a component of the multienzyme pyruvate dehydrogenase complex; 2-oxoglutarate dehydrogenase (1.2.4.2 from EC), a component of the multienzyme 2-oxoglutarate dehydrogenase which contains multiple copies of three enzymatic components: 2-oxoglutarate dehydrogenase (E1), dihydrolipoamide succinyltransferase (E2) and lipoamide dehydrogenase (E3); and 2-oxoisovalerate dehydrogenase (1.2.4.4 from EC), a component of the multienzyme branched-chain alpha-keto dehydrogenase complex all belong to this family.; GO: 0016624 oxidoreductase activity, acting on the aldehyde or oxo group of donors, disulfide as acceptor, 0008152 metabolic process; PDB: 1X7Y_A 1V1M_A 1X7W_A 1OLU_A 2J9F_A 2BEW_A 1V11_A 2BFE_A 1U5B_A 2BEU_A ....
Probab=22.35 E-value=1.4e+02 Score=23.79 Aligned_cols=78 Identities=13% Similarity=0.109 Sum_probs=47.3
Q ss_pred EEecCh-HHHHhHHHHHHHHHHHcCCccc---------CC---cc---------cccccccccchhhchHHHHhccCcee
Q psy3321 4 LVLGDP-EDVKNNEDKIYSIAKRYGGIPA---------GE---SN---------GRRGYMLTYIIAYIRDFACDYYFIGD 61 (110)
Q Consensus 4 gfEG~~-~~V~~~~~~~~~I~~~~GGv~~---------G~---~~---------G~~W~~~rF~~PYLRD~l~~~G~~~D 61 (110)
-..|.+ ..|-...+.+.+.+++.+|-.+ |- .. -+.|++.+=-++.+|+.|.+.|++-+
T Consensus 191 ~VDG~D~~av~~a~~~A~~~~R~g~gP~lie~~tyR~~gHs~~Dd~~~yr~~~e~~~~~~~~DPi~~~~~~L~~~g~~t~ 270 (300)
T PF00676_consen 191 RVDGNDVEAVYEAAKEAVEYARAGKGPVLIEAVTYRLRGHSESDDPTFYRSPEEYEEWWKKRDPIKRFRRYLIEEGVLTE 270 (300)
T ss_dssp EEETTSHHHHHHHHHHHHHHHHTTT--EEEEEEE--SS-SSTTSCGGGTSHHHHHHHHHHCT-HHHHHHHHHHHTTSS-H
T ss_pred EECCEeHHHHHHHHHHHHHHHhcCCCCEEEEEeeccCCCCCCCCCccccCCHHHHHHHHhcCcHHHHHHHHHHHcCCCCH
Confidence 346765 5588888999999999888211 11 11 11344444334488999999999866
Q ss_pred eeeccccccCcHHHHHHHHHHHHHHHHh
Q psy3321 62 SFETSVPWDKTVLLCINVKKRLTRECTV 89 (110)
Q Consensus 62 T~ETAv~Ws~v~~l~~~V~~a~~~a~~~ 89 (110)
+.+.++.+.+++.|.++.+.
T Consensus 271 --------~~~~~i~~e~~~~v~~a~~~ 290 (300)
T PF00676_consen 271 --------EELDAIEAEIKAEVEEAVEF 290 (300)
T ss_dssp --------HHHHHHHHHHHHHHHHHHHH
T ss_pred --------HHHHHHHHHHHHHHHHHHHH
Confidence 35556666666666666544
No 30
>COG3737 Uncharacterized conserved protein [Function unknown]
Probab=22.24 E-value=50 Score=24.05 Aligned_cols=48 Identities=10% Similarity=0.059 Sum_probs=34.6
Q ss_pred HHHHHHHHHHcCC---cccCCcccccccccccchhhchHHHHhccCceeeeecccc
Q psy3321 16 EDKIYSIAKRYGG---IPAGESNGRRGYMLTYIIAYIRDFACDYYFIGDSFETSVP 68 (110)
Q Consensus 16 ~~~~~~I~~~~GG---v~~G~~~G~~W~~~rF~~PYLRD~l~~~G~~~DT~ETAv~ 68 (110)
-+...++++...- +.+| .+...||--|-||..+...||.+|.+-|..-
T Consensus 57 ~e~f~~vl~~a~~~EilliG-----TG~~~rf~p~~l~aal~~~gIsve~Mst~AA 107 (127)
T COG3737 57 PEDFERVLAEAPDVEILLIG-----TGARLRFPPPKLRAALKAAGISVEPMSTGAA 107 (127)
T ss_pred HHHHHHHHhcCCCceEEEEe-----cCccccCCCHHHHHHHHHcCCccccccchhh
Confidence 3444455555443 2334 3457899888999999999999999998764
No 31
>PF02042 RWP-RK: RWP-RK domain; InterPro: IPR003035 This domain is named RWP-RK after a conserved motif at the C terminus of the domain. The domain is found in algal minus dominance proteins as well as plant proteins involved in nitrogen-controlled development [].
Probab=22.13 E-value=79 Score=19.41 Aligned_cols=17 Identities=24% Similarity=0.258 Sum_probs=14.0
Q ss_pred HHHHHHHhcCCCCCccc
Q psy3321 82 RLTRECTVSLVGRIKSA 98 (110)
Q Consensus 82 a~~~a~~~~g~~~~~~~ 98 (110)
.+.+-|++.|++.||.-
T Consensus 31 ~LKr~CR~~GI~RWP~R 47 (52)
T PF02042_consen 31 TLKRRCRRLGIPRWPYR 47 (52)
T ss_pred HHHHHHHHcCCCCCCch
Confidence 46777999999999964
No 32
>PF04430 DUF498: Protein of unknown function (DUF498/DUF598); InterPro: IPR007523 NADH:ubiquinone oxidoreductase (complex I) (1.6.5.3 from EC) is a respiratory-chain enzyme that catalyses the transfer of two electrons from NADH to ubiquinone in a reaction that is associated with proton translocation across the membrane (NADH + ubiquinone = NAD+ + ubiquinol) []. Complex I is a major source of reactive oxygen species (ROS) that are predominantly formed by electron transfer from FMNH(2). Complex I is found in bacteria, cyanobacteria (as a NADH-plastoquinone oxidoreductase), archaea [], mitochondira, and in the hydrogenosome, a mitochondria-derived organelle. In general, the bacterial complex consists of 14 different subunits, while the mitochondrial complex contains homologues to these subunits in addition to approximately 31 additional proteins []. Mitochondrial complex I, which is located in the inner mitochondrial membrane, is the largest multimeric respiratory enzyme in the mitochondria, consisting of more than 40 subunits, one FMN co-factor and eight FeS clusters []. The assembly of mitochondrial complex I is an intricate process that requires the cooperation of the nuclear and mitochondrial genomes [, ]. Mitochondrial complex I can cycle between active and deactive forms that can be distinguished by the reactivity towards divalent cations and thiol-reactive agents. All redox prosthetic groups reside in the peripheral arm of the L-shaped structure. The NADH oxidation domain harbouring the FMN cofactor is connected via a chain of iron-sulphur clusters to the ubiquinone reduction site that is located in a large pocket formed by the PSST and 49kDa subunits of complex I []. This is entry represents an essential factor for the assembly of mitochondrial NADH:ubiquinone oxidoreductase complex (complex I) []. The crystal structure of this protein revealed a 3-layer beta+alpha/beta/alpha topology [].; PDB: 2K2E_A 2Q4Q_B 2AB1_A 2FVT_A 2CYJ_A 1IHN_B 2GM2_A 3CPK_A 2FI9_A.
Probab=21.81 E-value=53 Score=22.25 Aligned_cols=27 Identities=7% Similarity=0.059 Sum_probs=21.3
Q ss_pred cccccchhhchHHHHhccCceeeeecc
Q psy3321 40 YMLTYIIAYIRDFACDYYFIGDSFETS 66 (110)
Q Consensus 40 ~~~rF~~PYLRD~l~~~G~~~DT~ETA 66 (110)
....|-.|-+++.+.++|+-+|.+-|.
T Consensus 63 ~~~~~~~~~~~~~l~~~GI~ve~m~T~ 89 (110)
T PF04430_consen 63 KRQLFLPPELREYLRKKGIGVEVMDTP 89 (110)
T ss_dssp TS-SECTHHHHHHHHTTT-EEEEE-HH
T ss_pred CccccCCHHHHHHHHHcCCeEEEECHH
Confidence 347888999999999999999999885
No 33
>cd03522 MoeA_like MoeA_like. This domain is similar to a domain found in a variety of proteins involved in biosynthesis of molybdopterin cofactor, like MoaB, MogA, and MoeA. There this domain is presumed to bind molybdopterin. The exact function of this subgroup is unknown.
Probab=21.50 E-value=2.6e+02 Score=22.78 Aligned_cols=66 Identities=8% Similarity=-0.080 Sum_probs=38.7
Q ss_pred hHHHHHHHHHHHcCC-------------cccCCcccccccccccchhhchHHHHhccCceeeeeccccccCcHHHHHHHH
Q psy3321 14 NNEDKIYSIAKRYGG-------------IPAGESNGRRGYMLTYIIAYIRDFACDYYFIGDSFETSVPWDKTVLLCINVK 80 (110)
Q Consensus 14 ~~~~~~~~I~~~~GG-------------v~~G~~~G~~W~~~rF~~PYLRD~l~~~G~~~DT~ETAv~Ws~v~~l~~~V~ 80 (110)
.+.+++.++++..|= +..|.+....-.... +.|.|+..|.++|+- ..+..+--|+...+.+.++
T Consensus 137 ~~~~~a~~~~~~~gi~~V~v~r~~rv~II~TG~Ev~~G~i~D~-~~~~l~~~L~~~G~~--v~~~~iv~Dd~~~I~~ai~ 213 (312)
T cd03522 137 ALVERAEALARDGPLLRVAPFRPLRVGLIVTGSEVYGGRIEDK-FGPVLRARLAALGVE--LVEQVIVPHDEAAIAAAIA 213 (312)
T ss_pred HHHHHHHHHHHhCCCcEEEecCCCEEEEEEcCCcCCCCcEEEh-HHHHHHHHHHHCCCE--EEEEEEcCCCHHHHHHHHH
Confidence 456677778875332 233654432222333 379999999999954 4444444477766666664
Q ss_pred HH
Q psy3321 81 KR 82 (110)
Q Consensus 81 ~a 82 (110)
++
T Consensus 214 ~~ 215 (312)
T cd03522 214 EA 215 (312)
T ss_pred HH
Confidence 44
No 34
>PF00487 FA_desaturase: Fatty acid desaturase This entry is only a subset of the Pfam family.; InterPro: IPR005804 Fatty acid desaturases are enzymes that catalyse the insertion of a double bond at the delta position of fatty acids. There seem to be two distinct families of fatty acid desaturases which do not seem to be evolutionary related. Family 1 is composed of: Stearoyl-CoA desaturase (SCD) (1.14.19.1 from EC) []. Family 2 is composed of: Bacterial fatty acid desaturases. Plant stearoyl-acyl-carrier-protein desaturase (1.14.19.1 from EC) [], this enzyme catalyzes the introduction of a double bond at the delta(9) position of steraoyl-ACP to produce oleoyl-ACP. This enzyme is responsible for the conversion of saturated fatty acids to unsaturated fatty acids in the synthesis of vegetable oils. Cyanobacterial DesA [], an enzyme that can introduce a second cis double bond at the delta(12) position of fatty acid bound to membranes glycerolipids. DesA is involved in chilling tolerance; the phase transition temperature of lipids of cellular membranes being dependent on the degree of unsaturation of fatty acids of the membrane lipids. This entry contains fatty acid desaturases belonging to Family 1. ; GO: 0006629 lipid metabolic process
Probab=21.47 E-value=74 Score=22.54 Aligned_cols=25 Identities=24% Similarity=0.260 Sum_probs=17.8
Q ss_pred ccccccCcHHHHHHHHHHHHHHHHhcCCC
Q psy3321 65 TSVPWDKTVLLCINVKKRLTRECTVSLVG 93 (110)
Q Consensus 65 TAv~Ws~v~~l~~~V~~a~~~a~~~~g~~ 93 (110)
-+++|.+++++++.+++ .|++++++
T Consensus 228 P~vp~~~l~~~~~~~~~----~~~~~~~~ 252 (257)
T PF00487_consen 228 PGVPWYNLPEAHPILKE----VCPEYGVP 252 (257)
T ss_pred CCcCHHHHHHHHHHHHH----HHHHcCCc
Confidence 47899999999988844 45555443
No 35
>PF01883 DUF59: Domain of unknown function DUF59; InterPro: IPR002744 This family includes prokaryotic proteins of unknown function. The family also includes PhaH (O84984 from SWISSPROT) from Pseudomonas putida. PhaH forms a complex with PhaF (O84982 from SWISSPROT), PhaG (O84983 from SWISSPROT) and PhaI (O84985 from SWISSPROT), which hydroxylates phenylacetic acid to 2-hydroxyphenylacetic acid []. So members of this family may all be components of ring hydroxylating complexes.; PDB: 3LNO_C 3CQ3_A 3CQ2_D 2CU6_B 3CQ1_A 3UX3_B 3UX2_A 1WCJ_A 1UWD_A.
Probab=21.41 E-value=1.1e+02 Score=18.60 Aligned_cols=50 Identities=12% Similarity=0.081 Sum_probs=27.5
Q ss_pred cchhhchHHHHhccCcee----------eeeccccccCcHHHHHHHHHHHHHHHHhcCCCCCccc
Q psy3321 44 YIIAYIRDFACDYYFIGD----------SFETSVPWDKTVLLCINVKKRLTRECTVSLVGRIKSA 98 (110)
Q Consensus 44 F~~PYLRD~l~~~G~~~D----------T~ETAv~Ws~v~~l~~~V~~a~~~a~~~~g~~~~~~~ 98 (110)
+..|++-..+.++|++-+ +++...++.. ..+.+++.+++++. .++++.++
T Consensus 11 v~dP~~~~~iv~~g~V~~i~i~~~~V~v~l~l~~~~~~---~~~~l~~~i~~~l~--~l~gv~~V 70 (72)
T PF01883_consen 11 VKDPELGKDIVELGMVRDISIEGGKVSVSLELPTPACP---AAEPLREEIREALK--ALPGVKSV 70 (72)
T ss_dssp -BETTTSSBTTTTTSEEEEEECTCEEEEEE--SSTTHT---THHHHHHHHHHHHH--TSTT-SEE
T ss_pred CCCCCCCCCHHHcCCeeEEEEECCEEEEEEEECCCCch---HHHHHHHHHHHHHH--hCCCCceE
Confidence 445666556666665544 5666655544 66677777777776 44555443
No 36
>PRK09487 sdhC succinate dehydrogenase cytochrome b556 large membrane subunit; Provisional
Probab=21.32 E-value=31 Score=24.65 Aligned_cols=28 Identities=18% Similarity=0.368 Sum_probs=21.4
Q ss_pred chHHHHhccCceeeeeccccccCcHHHH
Q psy3321 49 IRDFACDYYFIGDSFETSVPWDKTVLLC 76 (110)
Q Consensus 49 LRD~l~~~G~~~DT~ETAv~Ws~v~~l~ 76 (110)
+|..+||.|+..|+++++...+.+.-..
T Consensus 89 IRHL~wD~g~g~~~~~~~~~sa~~v~~~ 116 (129)
T PRK09487 89 IRHLLMDFGYLEETLEAGKRSAKISFVI 116 (129)
T ss_pred HHHHHHHccccchhHHHHHHHHHHHHHH
Confidence 7999999999888788877665544333
No 37
>cd07939 DRE_TIM_NifV Streptomyces rubellomurinus FrbC and related proteins, catalytic TIM barrel domain. FrbC (NifV) of Streptomyces rubellomurinus catalyzes the condensation of acetyl-CoA and alpha-ketoglutarate to form homocitrate and CoA, a reaction similar to one catalyzed by homocitrate synthase. The gene encoding FrbC is one of several genes required for the biosynthesis of FR900098, a potent antimalarial antibiotic. This protein is also required for assembly of the nitrogenase MoFe complex but its exact role is unknown. This family also includes the NifV proteins of Heliobacterium chlorum and Gluconacetobacter diazotrophicus, which appear to be orthologous to FrbC. This family belongs to the DRE-TIM metallolyase superfamily. DRE-TIM metallolyases include 2-isopropylmalate synthase (IPMS), alpha-isopropylmalate synthase (LeuA), 3-hydroxy-3-methylglutaryl-CoA lyase, homocitrate synthase, citramalate synthase, 4-hydroxy-2-oxovalerate aldolase, re-citrate synthase, transcarbox
Probab=21.27 E-value=1.8e+02 Score=22.40 Aligned_cols=65 Identities=14% Similarity=0.008 Sum_probs=40.9
Q ss_pred HhHHHHHHHHHHHcCCcccCCcccccccccccchhhchHHHH---hcc----CceeeeeccccccCcHHHHHHHHHH
Q psy3321 13 KNNEDKIYSIAKRYGGIPAGESNGRRGYMLTYIIAYIRDFAC---DYY----FIGDSFETSVPWDKTVLLCINVKKR 82 (110)
Q Consensus 13 ~~~~~~~~~I~~~~GGv~~G~~~G~~W~~~rF~~PYLRD~l~---~~G----~~~DT~ETAv~Ws~v~~l~~~V~~a 82 (110)
-.....+.+.++++|...- ..-....|....|+.+... ++| .++||+-++.| ..+..+.+.+++.
T Consensus 109 ~~~~~~~i~~a~~~G~~v~----~~~~~~~~~~~~~~~~~~~~~~~~G~~~i~l~DT~G~~~P-~~v~~lv~~l~~~ 180 (259)
T cd07939 109 LDQLRRLVGRAKDRGLFVS----VGAEDASRADPDFLIEFAEVAQEAGADRLRFADTVGILDP-FTTYELIRRLRAA 180 (259)
T ss_pred HHHHHHHHHHHHHCCCeEE----EeeccCCCCCHHHHHHHHHHHHHCCCCEEEeCCCCCCCCH-HHHHHHHHHHHHh
Confidence 3445567788888886321 1223445566667775553 455 46799999999 5677777776543
No 38
>PF10979 DUF2786: Protein of unknown function (DUF2786); InterPro: IPR024498 This domain is found in proteins that have no known function.
Probab=21.19 E-value=1.4e+02 Score=17.36 Aligned_cols=21 Identities=14% Similarity=0.352 Sum_probs=17.4
Q ss_pred cChHHHHhHHHHHHHHHHHcC
Q psy3321 7 GDPEDVKNNEDKIYSIAKRYG 27 (110)
Q Consensus 7 G~~~~V~~~~~~~~~I~~~~G 27 (110)
+++++.....+++.+++.+||
T Consensus 19 ~~~~EA~~A~~kAq~Lm~ky~ 39 (43)
T PF10979_consen 19 SNEHEAEAALAKAQRLMAKYG 39 (43)
T ss_pred CCHHHHHHHHHHHHHHHHHhC
Confidence 345688889999999999987
No 39
>PF14791 DNA_pol_B_thumb: DNA polymerase beta thumb ; PDB: 1HUZ_A 3K75_D 1HUO_A 2BPC_A 1RPL_A 1NOM_A 1ZQX_A 1ZQU_A 1ZQZ_A 1ZQV_A ....
Probab=20.74 E-value=19 Score=22.75 Aligned_cols=26 Identities=23% Similarity=0.267 Sum_probs=15.7
Q ss_pred EEEEecChHHHHhHHHHHHHHHHHcCCcccC
Q psy3321 2 ALLVLGDPEDVKNNEDKIYSIAKRYGGIPAG 32 (110)
Q Consensus 2 ~lgfEG~~~~V~~~~~~~~~I~~~~GGv~~G 32 (110)
+++|+||++..+..+ .++++. |..+.
T Consensus 2 ll~~TGs~~fnr~lR----~~A~~~-g~~L~ 27 (64)
T PF14791_consen 2 LLYFTGSKEFNRDLR----QYAKKK-GMKLS 27 (64)
T ss_dssp HHHHHS-HHHHHHHH----HHHHHT-TEEEE
T ss_pred cccccCCHHHHHHHH----HHHHHc-CCeeC
Confidence 467899988755444 455555 66553
No 40
>COG2224 AceA Isocitrate lyase [Energy production and conversion]
Probab=20.51 E-value=1.3e+02 Score=26.14 Aligned_cols=41 Identities=17% Similarity=0.156 Sum_probs=29.5
Q ss_pred cccccCcHHHHHHHHHHHHHHH---HhcCCCCCccccccccccc
Q psy3321 66 SVPWDKTVLLCINVKKRLTREC---TVSLVGRIKSARADFILPT 106 (110)
Q Consensus 66 Av~Ws~v~~l~~~V~~a~~~a~---~~~g~~~~~~~~~~~~~~~ 106 (110)
-.||+.||.+.+.+-.+++.+= ...+..+..+..-|+.+|-
T Consensus 112 ~Yp~~sVP~~V~rI~~al~~aD~~q~~~~~~~~~~~~~Dy~~PI 155 (433)
T COG2224 112 LYPANSVPDVVKRINNALRRADQIQWSEGKGPGDRQAVDYFLPI 155 (433)
T ss_pred cCccccccHHHHHHHHHHHHHHHHHHHhccccccccccccccce
Confidence 3689999999999988888772 2245555555567777774
No 41
>PF01766 Birna_VP2: Birnavirus VP2 protein; InterPro: IPR002662 Infectious pancreatic necrosis virus (IPNV), a birnavirus, is an important pathogen in fish farms. Analyses of viral proteins showed that VP2 is the major structural and immunogenic polypeptide of the virus [, ]. All neutralizing monoclonal antibodies are specific to VP2 and bind to continuous or discontinuous epitopes. The variable domain of VP2 and the 20 adjacent amino acids of the conserved C-terminal are probably the most important in inducing an immune response for the protection of animals []. The large RNA segment of the Birnaviridae codes for a polyprotein (N-VP2-VP4-VP3-C), most of which is then processed to generate the constituent polypeptides. VP4 protein is involved in generating VP2 and VP3 []. Recombinant VP3 is more immunogenic than recombinant VP2 [].; GO: 0005198 structural molecule activity; PDB: 2DF7_T 3IDE_D 3FBM_A 2GSY_J 2IMU_A 1WCD_J.
Probab=20.49 E-value=12 Score=32.32 Aligned_cols=48 Identities=13% Similarity=0.184 Sum_probs=26.5
Q ss_pred EEEecChHHHHhH-----HHHHHHHHHHcCCcccCCcccccccccccchhhch
Q psy3321 3 LLVLGDPEDVKNN-----EDKIYSIAKRYGGIPAGESNGRRGYMLTYIIAYIR 50 (110)
Q Consensus 3 lgfEG~~~~V~~~-----~~~~~~I~~~~GGv~~G~~~G~~W~~~rF~~PYLR 50 (110)
+.|+|+.+||... +.....+.-+-|.+.+|...+--=.-.+|+.||.|
T Consensus 121 vt~~G~lSEv~~~~Y~~llS~tsn~~DKvgnvlV~dGv~VLSLPt~fD~pYVR 173 (441)
T PF01766_consen 121 VTFQGSLSEVEDLSYNSLLSATSNPLDKVGNVLVGDGVAVLSLPTGFDNPYVR 173 (441)
T ss_dssp EEESS-GGG-S--STTGGGGS-S-GGGEEEEEETTT-EEEE---S-SS---EE
T ss_pred EEeccCHHHcccccccceeeeccChhhhhcCEEecCceEEEecCcccCCCcee
Confidence 5689988886532 33444566788889999987777788899999999
No 42
>PRK06195 DNA polymerase III subunit epsilon; Validated
Probab=20.37 E-value=89 Score=24.93 Aligned_cols=29 Identities=17% Similarity=0.328 Sum_probs=21.3
Q ss_pred CEEEEecChHHHHhHHHHHHHHHHHcCCccc
Q psy3321 1 MALLVLGDPEDVKNNEDKIYSIAKRYGGIPA 31 (110)
Q Consensus 1 ~~lgfEG~~~~V~~~~~~~~~I~~~~GGv~~ 31 (110)
+.+.|+|+=+ ...++++.++++++||.+.
T Consensus 224 ~~~vfTG~l~--~~~R~~~~~~~~~~Gg~v~ 252 (309)
T PRK06195 224 EVVVFTGGLA--SMTRDEAMILVRRLGGTVG 252 (309)
T ss_pred CEEEEccccC--CCCHHHHHHHHHHhCCEec
Confidence 3678898642 2358889999999999433
No 43
>COG3531 Predicted protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]
Probab=20.36 E-value=1.1e+02 Score=24.06 Aligned_cols=52 Identities=6% Similarity=-0.029 Sum_probs=38.6
Q ss_pred chhhchHHHHhccCceeeeeccccccCcHHHHHHHHHHHHHHHHhcCCCCCccc
Q psy3321 45 IIAYIRDFACDYYFIGDSFETSVPWDKTVLLCINVKKRLTRECTVSLVGRIKSA 98 (110)
Q Consensus 45 ~~PYLRD~l~~~G~~~DT~ETAv~Ws~v~~l~~~V~~a~~~a~~~~g~~~~~~~ 98 (110)
..|-|++.+.+.|+-.|.|-++.+ .-....++..+.-+.-+.+-|..+.||-
T Consensus 127 ~t~vl~~laa~~GL~~~~f~~~f~--~s~~~~~~~~a~~r~l~~rlg~~GfPTl 178 (212)
T COG3531 127 QTEVLAELAAAIGLAAEEFDNAFD--QSGAARQAHIADSRRLMQRLGAAGFPTL 178 (212)
T ss_pred hhHHHHHHHHHcCCCHHHHHHhcc--hhHHHHHHHHHHHHHHHHHhccCCCCee
Confidence 368999999999999999999988 3444444444444555777888888873
No 44
>PF00665 rve: Integrase core domain; InterPro: IPR001584 Integrase comprises three domains capable of folding independently and whose three-dimensional structures are known. However, the manner in which the N-terminal, catalytic, and C-terminal domains interact in the holoenzyme remains obscure. Numerous studies indicate that the enzyme functions as a multimer, minimally a dimer. The integrase proteins from Human immunodeficiency virus 1 (HIV-1) and Avian sarcoma virus (ASV) have been studied most carefully with respect to the structural basis of catalysis. Although the active site of ASV integrase does not undergo significant conformational changes on binding the required metal cofactor, that of HIV-1 does. This active site-mediated conformational change in HIV-1 reorganises the catalytic core and C-terminal domains and appears to promote an interaction that is favourable for catalysis []. Retroviral integrase is synthesised as part of the POL polyprotein that contains; an aspartyl protease, a reverse transcriptase, RNase H and integrase. POL polyprotein undergoes specific enzymatic cleavage to yield the mature proteins. The presence of retrovirus integrase-related gene sequences in eukaryotes is known. Bacterial transposases involved in the transposition of the insertion sequence also belong to this group. HIV integrase catalyses the incorporation of virally derived DNA into the human genome. This unique step in the virus life cycle provides a variety of points for intervention and hence is an attractive target for the development of new therapeutics for the treatment of AIDS []. Substrate recognition by the retroviral integrase enzyme is critical for retroviral integration. To catalyse this recombination event, integrase must recognise and act on two types of substrates, viral DNA and host DNA, yet the necessary interactions exhibit markedly different degrees of specificity [].; GO: 0015074 DNA integration; PDB: 3AO3_A 3OVN_A 3AO5_A 3AO4_A 3AO1_A 1C6V_D 3HPG_A 3HPH_A 3OYD_A 3OYF_B ....
Probab=20.34 E-value=84 Score=20.15 Aligned_cols=67 Identities=12% Similarity=0.114 Sum_probs=45.9
Q ss_pred HHHhHHHHHHHHHHHcCCcc---cCCcccccccccccchhhchHHHHhccCceeeeeccccccC--cHHHHHHHHHH
Q psy3321 11 DVKNNEDKIYSIAKRYGGIP---AGESNGRRGYMLTYIIAYIRDFACDYYFIGDSFETSVPWDK--TVLLCINVKKR 82 (110)
Q Consensus 11 ~V~~~~~~~~~I~~~~GGv~---~G~~~G~~W~~~rF~~PYLRD~l~~~G~~~DT~ETAv~Ws~--v~~l~~~V~~a 82 (110)
......+...+++...|+.. +=..+| .-|....++.++.++|+-.-..-...+|+| ++.....+++.
T Consensus 48 ~~~~~~~~l~~~~~~~~~~~p~~i~tD~g-----~~f~~~~~~~~~~~~~i~~~~~~~~~p~~ng~vEr~~~~l~~~ 119 (120)
T PF00665_consen 48 TAEAALRALKRAIEKRGGRPPRVIRTDNG-----SEFTSHAFEAWCKHLGIKHVFTPPYTPQQNGFVERFNRTLKRR 119 (120)
T ss_dssp HHHHHHHHHHHHHHHHS-SE-SEEEEESC-----HHHHSHHHHHHHHHHT-EEEESSTSSTHHHHHHHHHHHHHHHH
T ss_pred ccccccccccccccccccccceecccccc-----cccccchhhhHHHHcCceEeeCCCCChhhccHHHHHHHHHHHh
Confidence 45566667777888888842 222332 335556889999999998888888889988 77777776654
No 45
>PF07478 Dala_Dala_lig_C: D-ala D-ala ligase C-terminus; InterPro: IPR011095 This entry represents the C-terminal, catalytic domain of the D-alanine--D-alanine ligase enzyme 6.3.2.4 from EC. D-Alanine is one of the central molecules of the cross-linking step of peptidoglycan assembly. There are three enzymes involved in the D-alanine branch of peptidoglycan biosynthesis: the pyridoxal phosphate-dependent D-alanine racemase (Alr), the ATP-dependent D-alanine: D-alanine ligase (Ddl), and the ATP-dependent D-alanine:D-alanine-adding enzyme (MurF) [].; GO: 0008716 D-alanine-D-alanine ligase activity; PDB: 3Q1K_D 3I12_C 1IOV_A 1IOW_A 2DLN_A 4EG0_B 3LWB_A 1EHI_B 2FB9_A 3V4Z_A ....
Probab=20.31 E-value=1.3e+02 Score=22.56 Aligned_cols=43 Identities=21% Similarity=0.143 Sum_probs=31.6
Q ss_pred eeeeccccccCcHHHHHHHHHHHHHHHHhcCCCCCcccccccccc
Q psy3321 61 DSFETSVPWDKTVLLCINVKKRLTRECTVSLVGRIKSARADFILP 105 (110)
Q Consensus 61 DT~ETAv~Ws~v~~l~~~V~~a~~~a~~~~g~~~~~~~~~~~~~~ 105 (110)
...+.-++-.-=+++.+.+++-..++++..|.+++ +|.||++-
T Consensus 119 ~~~~~~~pa~l~~~~~~~i~~~a~~a~~~lg~~~~--~RiD~rv~ 161 (203)
T PF07478_consen 119 SETEYIIPADLSEELQEKIKEIAKKAFKALGCRGY--ARIDFRVD 161 (203)
T ss_dssp SCEEEESS-SS-HHHHHHHHHHHHHHHHHTTTCSE--EEEEEEEE
T ss_pred CceEEEecCCCCHHHHHHHHHHHHHHHHHHcCCCc--eeEEEEec
Confidence 33455555444467888899999999999999886 89999874
No 46
>PRK07998 gatY putative fructose-1,6-bisphosphate aldolase; Reviewed
Probab=20.04 E-value=2.8e+02 Score=22.37 Aligned_cols=63 Identities=16% Similarity=0.129 Sum_probs=38.8
Q ss_pred EEEecChHHH---HhHHHHHHHHHHHcCCc-------ccCCcccccccccccchh-hchHHHHhccCceeeeeccc
Q psy3321 3 LLVLGDPEDV---KNNEDKIYSIAKRYGGI-------PAGESNGRRGYMLTYIIA-YIRDFACDYYFIGDSFETSV 67 (110)
Q Consensus 3 lgfEG~~~~V---~~~~~~~~~I~~~~GGv-------~~G~~~G~~W~~~rF~~P-YLRD~l~~~G~~~DT~ETAv 67 (110)
+.|.||..+. -..-+++.++|..+|-. ..|.+.+.......|..| -.++|.-+-| +|.|-.|+
T Consensus 101 VM~DgS~l~~eeNi~~T~~vve~Ah~~gv~VEaElG~vgg~ed~~~~~~~~~T~pe~a~~Fv~~Tg--vD~LAvai 174 (283)
T PRK07998 101 VMIDGAALPFEENIAFTKEAVDFAKSYGVPVEAELGAILGKEDDHVSEADCKTEPEKVKDFVERTG--CDMLAVSI 174 (283)
T ss_pred EEEeCCCCCHHHHHHHHHHHHHHHHHcCCEEEEEeccCCCccccccccccccCCHHHHHHHHHHhC--cCeeehhc
Confidence 4677887444 34456666788887741 223332211124557788 6677888777 68888887
Done!