Query psy2326
Match_columns 181
No_of_seqs 195 out of 1013
Neff 4.7
Searched_HMMs 46136
Date Fri Aug 16 21:45:42 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy2326.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/2326hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG3157|consensus 100.0 7.4E-52 1.6E-56 348.9 13.1 148 6-180 74-221 (244)
2 COG0325 Predicted enzyme with 100.0 5.8E-50 1.3E-54 340.0 13.7 140 6-181 72-211 (228)
3 cd06822 PLPDE_III_YBL036c_euk 100.0 2E-47 4.3E-52 323.5 15.2 145 7-180 67-213 (227)
4 TIGR00044 pyridoxal phosphate 100.0 1.6E-30 3.4E-35 218.3 14.9 140 7-180 74-213 (229)
5 cd06824 PLPDE_III_Yggs_like Py 99.9 7.4E-23 1.6E-27 170.7 14.1 138 7-180 72-209 (224)
6 cd00635 PLPDE_III_YBL036c_like 99.9 2.6E-21 5.6E-26 160.6 14.9 139 7-180 70-208 (222)
7 PF01168 Ala_racemase_N: Alani 99.8 1.2E-18 2.6E-23 142.1 13.2 133 8-179 66-199 (218)
8 cd06821 PLPDE_III_D-TA Type II 99.7 6E-16 1.3E-20 135.9 12.0 138 8-180 81-224 (361)
9 cd06820 PLPDE_III_LS_D-TA_like 99.6 2E-15 4.4E-20 132.2 12.3 134 8-178 76-213 (353)
10 cd06818 PLPDE_III_cryptic_DSD 99.6 2.3E-15 4.9E-20 134.5 11.7 136 13-180 81-223 (382)
11 cd06815 PLPDE_III_AR_like_1 Ty 99.6 5.3E-15 1.2E-19 130.9 13.6 133 8-178 72-204 (353)
12 cd00430 PLPDE_III_AR Type III 99.6 2.4E-14 5.3E-19 126.0 12.7 132 7-176 73-205 (367)
13 cd06808 PLPDE_III Type III Pyr 99.5 3.5E-13 7.5E-18 108.3 12.3 137 7-178 59-196 (211)
14 TIGR00492 alr alanine racemase 99.5 3.4E-13 7.5E-18 119.3 12.6 134 7-178 74-209 (367)
15 cd06819 PLPDE_III_LS_D-TA Type 99.4 1.1E-12 2.3E-17 115.1 10.8 134 9-179 81-221 (358)
16 cd07376 PLPDE_III_DSD_D-TA_lik 99.4 3.3E-12 7.1E-17 111.7 12.8 133 13-179 66-207 (345)
17 cd06811 PLPDE_III_yhfX_like Ty 99.4 4.5E-12 9.7E-17 114.1 12.2 137 7-178 96-245 (382)
18 cd06810 PLPDE_III_ODC_DapDC_li 99.2 2E-10 4.4E-15 100.6 12.2 129 11-176 73-216 (368)
19 cd06817 PLPDE_III_DSD Type III 99.2 3.1E-10 6.8E-15 102.8 12.8 133 12-178 84-229 (389)
20 PRK13340 alanine racemase; Rev 99.2 3.4E-10 7.4E-15 102.3 12.5 125 17-177 122-246 (406)
21 PRK00053 alr alanine racemase; 99.1 3.9E-10 8.4E-15 99.9 11.3 115 18-174 87-202 (363)
22 cd06839 PLPDE_III_Btrk_like Ty 99.0 4.5E-09 9.7E-14 92.7 12.5 126 11-172 79-218 (382)
23 cd06814 PLPDE_III_DSD_D-TA_lik 99.0 3.4E-09 7.3E-14 95.6 11.2 113 30-177 108-230 (379)
24 TIGR01048 lysA diaminopimelate 98.9 2E-08 4.3E-13 90.1 11.7 123 12-171 99-236 (417)
25 cd06828 PLPDE_III_DapDC Type I 98.9 3.4E-08 7.3E-13 86.8 13.0 125 11-171 76-214 (373)
26 cd06812 PLPDE_III_DSD_D-TA_lik 98.8 7.4E-08 1.6E-12 85.2 12.7 113 30-178 99-219 (374)
27 COG3616 Predicted amino acid a 98.8 8.1E-08 1.8E-12 87.4 12.0 122 21-180 104-226 (368)
28 cd06843 PLPDE_III_PvsE_like Ty 98.7 2.6E-07 5.5E-12 82.2 12.3 127 10-170 72-211 (377)
29 PLN02537 diaminopimelate decar 98.6 3.6E-07 7.7E-12 82.3 12.1 125 11-170 91-228 (410)
30 cd06842 PLPDE_III_Y4yA_like Ty 98.6 9.3E-07 2E-11 80.5 12.5 123 11-171 85-212 (423)
31 cd06826 PLPDE_III_AR2 Type III 98.4 4.2E-06 9E-11 74.8 13.1 124 14-172 80-204 (365)
32 cd06813 PLPDE_III_DSD_D-TA_lik 98.4 3.8E-06 8.2E-11 75.7 12.0 83 19-133 91-185 (388)
33 cd06825 PLPDE_III_VanT Type II 98.4 4.1E-06 8.9E-11 75.2 11.9 118 14-174 80-201 (368)
34 cd06827 PLPDE_III_AR_proteobac 98.3 6.7E-06 1.5E-10 73.6 11.5 86 12-134 76-161 (354)
35 PRK11930 putative bifunctional 98.3 8.6E-06 1.9E-10 79.6 12.8 121 13-173 537-661 (822)
36 PRK03646 dadX alanine racemase 98.2 8.6E-06 1.9E-10 73.0 9.7 84 14-134 80-163 (355)
37 TIGR03099 dCO2ase_PEP1 pyridox 98.2 3.1E-05 6.7E-10 69.3 12.7 88 11-132 97-196 (398)
38 cd06841 PLPDE_III_MccE_like Ty 98.1 7.4E-05 1.6E-09 66.5 12.3 93 11-133 82-178 (379)
39 COG3457 Predicted amino acid r 97.7 0.00046 9.9E-09 62.5 11.6 115 20-176 86-207 (353)
40 cd06830 PLPDE_III_ADC Type III 97.7 0.00065 1.4E-08 61.7 12.2 106 32-170 114-231 (409)
41 COG0019 LysA Diaminopimelate d 97.7 0.00054 1.2E-08 62.8 11.7 127 9-171 98-237 (394)
42 PF02784 Orn_Arg_deC_N: Pyrido 97.6 0.00045 9.8E-09 58.1 9.0 123 9-170 66-203 (251)
43 cd00622 PLPDE_III_ODC Type III 97.5 0.0023 5.1E-08 56.4 12.2 123 10-170 72-199 (362)
44 COG0787 Alr Alanine racemase [ 97.4 0.0026 5.6E-08 58.1 11.7 72 30-134 97-168 (360)
45 PRK11165 diaminopimelate decar 97.2 0.0052 1.1E-07 56.1 11.9 117 10-172 97-227 (420)
46 cd06836 PLPDE_III_ODC_DapDC_li 97.0 0.011 2.4E-07 53.0 12.0 124 10-170 74-214 (379)
47 PLN02439 arginine decarboxylas 97.0 0.013 2.7E-07 56.3 12.3 107 30-169 108-226 (559)
48 PRK05354 arginine decarboxylas 96.7 0.02 4.4E-07 55.7 12.0 106 31-170 172-290 (634)
49 TIGR01273 speA arginine decarb 96.7 0.028 6E-07 54.7 12.2 106 31-170 165-283 (624)
50 cd06831 PLPDE_III_ODC_like_AZI 96.1 0.045 9.7E-07 49.9 9.5 122 9-170 82-210 (394)
51 TIGR01047 nspC carboxynorsperm 95.9 0.12 2.5E-06 46.8 11.1 66 11-81 74-152 (380)
52 cd06840 PLPDE_III_Bif_AspK_Dap 95.5 0.28 6.1E-06 44.0 12.0 117 9-170 83-212 (368)
53 PRK08961 bifunctional aspartat 95.4 0.23 5E-06 49.6 12.0 116 10-170 575-703 (861)
54 KOG0622|consensus 90.9 2.6 5.7E-05 39.8 10.3 119 12-170 128-253 (448)
55 cd06829 PLPDE_III_CANSDC Type 90.0 2 4.2E-05 38.2 8.5 66 9-81 70-148 (346)
56 TIGR00696 wecB_tagA_cpsF bacte 74.9 9.6 0.00021 31.3 5.9 59 32-133 27-85 (177)
57 cd06533 Glyco_transf_WecG_TagA 56.9 39 0.00084 27.2 6.0 55 31-126 24-78 (171)
58 COG0386 BtuE Glutathione perox 56.8 19 0.00041 30.0 4.2 16 59-77 26-41 (162)
59 PF03808 Glyco_tran_WecB: Glyc 51.1 57 0.0012 26.2 6.1 55 32-127 27-81 (172)
60 cd01841 NnaC_like NnaC (CMP-Ne 40.9 1.6E+02 0.0035 22.4 11.2 94 37-159 35-130 (174)
61 TIGR02919 accessory Sec system 37.8 34 0.00073 32.0 3.3 56 3-69 302-359 (438)
62 PF12516 DUF3719: Protein of u 35.0 65 0.0014 22.9 3.6 25 109-133 16-40 (68)
63 cd01833 XynB_like SGNH_hydrola 34.0 2E+02 0.0043 21.5 8.3 71 59-157 42-112 (157)
64 cd02877 GH18_hevamine_XipI_cla 29.9 73 0.0016 28.0 3.9 44 58-130 220-264 (280)
65 PLN02489 homocysteine S-methyl 29.5 2.6E+02 0.0057 25.1 7.4 79 30-115 183-263 (335)
66 cd01828 sialate_O-acetylestera 25.8 3E+02 0.0064 20.8 10.9 91 38-159 34-124 (169)
67 COG1419 FlhF Flagellar GTP-bin 23.7 1.5E+02 0.0032 28.1 4.9 58 61-126 284-343 (407)
68 cd00231 ZipA ZipA C-terminal d 22.2 1.6E+02 0.0034 23.2 4.1 37 117-160 72-108 (130)
69 PRK03692 putative UDP-N-acetyl 21.5 2.6E+02 0.0056 24.1 5.7 30 101-132 112-141 (243)
70 cd00950 DHDPS Dihydrodipicolin 21.4 4.6E+02 0.01 22.2 7.2 23 109-135 86-108 (284)
71 cd06546 GH18_CTS3_chitinase GH 20.0 1.6E+02 0.0036 25.2 4.2 19 109-129 233-251 (256)
No 1
>KOG3157|consensus
Probab=100.00 E-value=7.4e-52 Score=348.93 Aligned_cols=148 Identities=49% Similarity=0.845 Sum_probs=142.5
Q ss_pred CCceeeeecccccccHHhhhcCCCccEEEEeccHHHHHHHHHHHHhcCCCCCceEEEEEeCCCCCccCCCCccchhhhhh
Q psy2326 6 KDIRWHFIGHLQSNKVPKVIKVPNLEYIETIHDTRLATQVNNAWAKHQPDKKLKVFCQINTSGEENKHGAHPEHAEALVS 85 (181)
Q Consensus 6 ~di~WHfIG~LQsNKvk~l~~~~~~~~I~sVDs~~lA~~L~~~~~~~~~~~~l~VliQVN~s~E~~K~Gv~p~~~~~~~~ 85 (181)
+||+|||||||||||+|+|+.+||+++|+|||+.|+|+.|+++|++.+++.||+||||||||||++|+|+.|.++.
T Consensus 74 ~DI~WHFIG~lQsnK~kkl~svpnL~~vetVDseK~A~~ld~a~~k~g~~~PL~V~VQvNTSGEd~K~Giepse~~---- 149 (244)
T KOG3157|consen 74 DDIKWHFIGHLQSNKCKKLLSVPNLYSVETVDSEKKARKLDSAWSKLGPDNPLKVLVQVNTSGEDSKSGIEPSEAP---- 149 (244)
T ss_pred ccceeeeechhhhcccchhccCCceEEEEecchHHHHHHHHHHHHhcCCCCCeEEEEEeecCCccccCCCChhhhH----
Confidence 5899999999999999999999999999999999999999999999998889999999999999999999999999
Q ss_pred hhccCCCCCcccCCCCCCchhHHHHHHHHHhhCCCceEeeeeecCCCCCCCCCCccHHHHHHHHHHHHHHHhcCCCCCCC
Q psy2326 86 HVINSCPNLEFTDKHGAHPEHAEALVSHVINSCPNLEFTGLMTIGKYGYDTKHGPNPDFLELAKCRKDVCKKLNLNESNV 165 (181)
Q Consensus 86 ~~~~~~~~~~~~~~~~~~~~~~~~l~~~i~~~~p~L~l~GLMTi~~~~~d~~~~~~~~F~~L~~l~~~l~~~~~~~~~~~ 165 (181)
+|+++|..+|+||+|.||||||.++++...+.||+|+.|.++|+.+++++|++++-.
T Consensus 150 -----------------------~l~~~i~~~c~nL~f~GlMTIGs~~~s~ss~eNpDF~~L~~~r~~ic~~lg~~~dq~ 206 (244)
T KOG3157|consen 150 -----------------------ELAEHIKSECKNLKFSGLMTIGSFDNSHSSGENPDFQVLVKLRESICKKLGIPADQV 206 (244)
T ss_pred -----------------------HHHHHHHHhCCcceeeeeEEeccccccccCCCCccHHHHHHHHHHHHHHhCCChHHh
Confidence 999999888999999999999999998666889999999999999999999987789
Q ss_pred EEeeCCcchHHHHhc
Q psy2326 166 ELSMGMSSDLRERES 180 (181)
Q Consensus 166 ~LSMGMS~D~~~AI~ 180 (181)
+||||||+||+.||+
T Consensus 207 eLSMGMS~DF~~AIe 221 (244)
T KOG3157|consen 207 ELSMGMSADFLLAIE 221 (244)
T ss_pred hhhcccchhHHHHHH
Confidence 999999999999997
No 2
>COG0325 Predicted enzyme with a TIM-barrel fold [General function prediction only]
Probab=100.00 E-value=5.8e-50 Score=339.97 Aligned_cols=140 Identities=39% Similarity=0.540 Sum_probs=129.7
Q ss_pred CCceeeeecccccccHHhhhcCCCccEEEEeccHHHHHHHHHHHHhcCCCCCceEEEEEeCCCCCccCCCCccchhhhhh
Q psy2326 6 KDIRWHFIGHLQSNKVPKVIKVPNLEYIETIHDTRLATQVNNAWAKHQPDKKLKVFCQINTSGEENKHGAHPEHAEALVS 85 (181)
Q Consensus 6 ~di~WHfIG~LQsNKvk~l~~~~~~~~I~sVDs~~lA~~L~~~~~~~~~~~~l~VliQVN~s~E~~K~Gv~p~~~~~~~~ 85 (181)
+||.|||||+|||||+|++++ ++++||||||+|+|++|++++...++ +++||||||+|+|++|+|++|+++.
T Consensus 72 ~~i~WHfIG~LQsNK~k~v~~--~~~~ihSlDr~klA~~l~kra~~~~~--~l~v~iQVNi~~E~sK~G~~~~e~~---- 143 (228)
T COG0325 72 PDIEWHFIGPLQSNKVKLVAE--NFDWIHSLDRLKLAKELNKRALELPK--PLNVLIQVNISGEESKSGVPPEELD---- 143 (228)
T ss_pred CCeEEEEechhhhhHHHHHHh--hcceeeecCHHHHHHHHHHHHHhCCC--CceEEEEEecCCccccCCCCHHHHH----
Confidence 469999999999999999998 99999999999999999998877775 8999999999999999999999999
Q ss_pred hhccCCCCCcccCCCCCCchhHHHHHHHHHhhCCCceEeeeeecCCCCCCCCCCccHHHHHHHHHHHHHHHhcCCCCCCC
Q psy2326 86 HVINSCPNLEFTDKHGAHPEHAEALVSHVINSCPNLEFTGLMTIGKYGYDTKHGPNPDFLELAKCRKDVCKKLNLNESNV 165 (181)
Q Consensus 86 ~~~~~~~~~~~~~~~~~~~~~~~~l~~~i~~~~p~L~l~GLMTi~~~~~d~~~~~~~~F~~L~~l~~~l~~~~~~~~~~~ 165 (181)
+++..+ +.||+|+++|||||||++.| ++..+..|+.|+++++++.+++. ...
T Consensus 144 -----------------------~~~~~~-~~~~~L~l~GLM~ipp~~~d-~~~~~~~F~~l~~l~~~l~~~~~---~~~ 195 (228)
T COG0325 144 -----------------------ELAQEV-QELPNLELRGLMTIPPLTDD-PEEIFAVFRKLRKLFDELKAKYP---PID 195 (228)
T ss_pred -----------------------HHHHHH-HhCCCCeEeEEEeeCCCCCC-HHHHHHHHHHHHHHHHHHHHhcC---CCC
Confidence 899998 68999999999999999987 45688999999999999998754 479
Q ss_pred EEeeCCcchHHHHhcC
Q psy2326 166 ELSMGMSSDLRERESS 181 (181)
Q Consensus 166 ~LSMGMS~D~~~AI~~ 181 (181)
+||||||+||++||+.
T Consensus 196 ~LSMGMS~D~e~AI~~ 211 (228)
T COG0325 196 ELSMGMSNDYEIAIAE 211 (228)
T ss_pred eecCcCcccHHHHHHc
Confidence 9999999999999973
No 3
>cd06822 PLPDE_III_YBL036c_euk Pyridoxal 5-phosphate (PLP)-binding TIM barrel domain of Type III PLP-Dependent Enzymes, Eukaryotic YBL036c-like proteins. This subfamily contains mostly uncharacterized eukaryotic proteins with similarity to the yeast hypothetical protein YBL036c, which is homologous to a Pseudomonas aeruginosa gene that is co-transcribed with a known proline biosynthetic gene. YBL036c is a single domain monomeric protein with a typical TIM barrel fold. It binds the PLP cofactor and has been shown to exhibit amino acid racemase activity. The YBL036c structure is similar to the N-terminal domain of the fold type III PLP-dependent enzymes, bacterial alanine racemase and eukaryotic ornithine decarboxylase, which are two-domain dimeric proteins. The lack of a second domain in YBL036c may explain limited D- to L-alanine racemase or non-specific racemase activity. Some members of this subfamily are also referred to as PROSC (Proline synthetase co-transcribed bacterial homolog)
Probab=100.00 E-value=2e-47 Score=323.54 Aligned_cols=145 Identities=57% Similarity=1.017 Sum_probs=130.3
Q ss_pred CceeeeecccccccHHhhhcCCCccEEEEeccHHHHHHHHHHHHhc--CCCCCceEEEEEeCCCCCccCCCCccchhhhh
Q psy2326 7 DIRWHFIGHLQSNKVPKVIKVPNLEYIETIHDTRLATQVNNAWAKH--QPDKKLKVFCQINTSGEENKHGAHPEHAEALV 84 (181)
Q Consensus 7 di~WHfIG~LQsNKvk~l~~~~~~~~I~sVDs~~lA~~L~~~~~~~--~~~~~l~VliQVN~s~E~~K~Gv~p~~~~~~~ 84 (181)
+|+|||||||||||+|++++++++++||||||+++|+.|++++.+. +. +++||||||+|+|++|+|++|+++.
T Consensus 67 ~i~wHfIG~LQ~NK~k~i~~~~~~~~ihsvDs~~la~~L~~~a~~~~~~~--~~~VlIqVn~g~e~~K~Gv~~~e~~--- 141 (227)
T cd06822 67 DIKWHFIGHLQSNKVKKLLKVPNLYMVETVDSEKLADKLNKAWEKLGERE--PLKVMVQVNTSGEESKSGLEPSEAV--- 141 (227)
T ss_pred CceEEEECCCchhhHHHHhccccccEEEecCCHHHHHHHHHHHHHhcCCC--CCcEEEEEeCCCCCCCCCCCHHHHH---
Confidence 6999999999999999998667999999999999999999999988 77 9999999999999999999998888
Q ss_pred hhhccCCCCCcccCCCCCCchhHHHHHHHHHhhCCCceEeeeeecCCCCCCCCCCccHHHHHHHHHHHHHHHhcCCCCCC
Q psy2326 85 SHVINSCPNLEFTDKHGAHPEHAEALVSHVINSCPNLEFTGLMTIGKYGYDTKHGPNPDFLELAKCRKDVCKKLNLNESN 164 (181)
Q Consensus 85 ~~~~~~~~~~~~~~~~~~~~~~~~~l~~~i~~~~p~L~l~GLMTi~~~~~d~~~~~~~~F~~L~~l~~~l~~~~~~~~~~ 164 (181)
+|+++|..+||||+|+|||||||++++..++.++.|+.|+++++.|++.+|+....
T Consensus 142 ------------------------~l~~~i~~~~~~L~l~GLMt~~~~~~~~~~~~r~~f~~l~~l~~~L~~~~g~~~~~ 197 (227)
T cd06822 142 ------------------------ELVKHIIEECPNLKFSGLMTIGSFGYSLSSGPNPDFLCLVDCRKKVCEKLGINPDD 197 (227)
T ss_pred ------------------------HHHHHHHhhCCCceEEEEEeeCCCCCCcHHHHHHHHHHHHHHHHHHHHhcCCCCCC
Confidence 89999831799999999999999988732456899999999999999865543235
Q ss_pred CEEeeCCcchHHHHhc
Q psy2326 165 VELSMGMSSDLRERES 180 (181)
Q Consensus 165 ~~LSMGMS~D~~~AI~ 180 (181)
.+||||||+||+.||+
T Consensus 198 ~~lSmGmS~D~~~Ai~ 213 (227)
T cd06822 198 LELSMGMSADFEHAIE 213 (227)
T ss_pred CEEEecccHhHHHHHH
Confidence 7999999999999996
No 4
>TIGR00044 pyridoxal phosphate enzyme, YggS family. Members of this protein family include YggS from Escherichia coli and YBL036C, an uncharacterized pyridoxal protein of Saccharomyces cerevisiae.
Probab=99.97 E-value=1.6e-30 Score=218.34 Aligned_cols=140 Identities=34% Similarity=0.493 Sum_probs=124.3
Q ss_pred CceeeeecccccccHHhhhcCCCccEEEEeccHHHHHHHHHHHHhcCCCCCceEEEEEeCCCCCccCCCCccchhhhhhh
Q psy2326 7 DIRWHFIGHLQSNKVPKVIKVPNLEYIETIHDTRLATQVNNAWAKHQPDKKLKVFCQINTSGEENKHGAHPEHAEALVSH 86 (181)
Q Consensus 7 di~WHfIG~LQsNKvk~l~~~~~~~~I~sVDs~~lA~~L~~~~~~~~~~~~l~VliQVN~s~E~~K~Gv~p~~~~~~~~~ 86 (181)
++.|||||++|+||.+.++. .++++++|||.+.|+.|++++.+.++ +++|+||||+|++.+|.|+.|+++.
T Consensus 74 ~~~~~~ig~~q~~~~~~~~~--~~~l~~~vds~~~~~~l~~~a~~~~~--~~~V~l~vdtg~gm~R~G~~~~e~~----- 144 (229)
T TIGR00044 74 KLEWHFIGPLQSNKDRLVVE--NFDWVHTIDSLKIAKKLNEQREKLQP--PLNVLLQINISDEESKSGIQPEELL----- 144 (229)
T ss_pred CceEEEECCCcchHHHHHhh--hcCEEEEECCHHHHHHHHHHHHhcCC--CceEEEEEECCCCCCCCCCCHHHHH-----
Confidence 58999999999999998875 78999999999999999999988877 8999999999999999999998887
Q ss_pred hccCCCCCcccCCCCCCchhHHHHHHHHHhhCCCceEeeeeecCCCCCCCCCCccHHHHHHHHHHHHHHHhcCCCCCCCE
Q psy2326 87 VINSCPNLEFTDKHGAHPEHAEALVSHVINSCPNLEFTGLMTIGKYGYDTKHGPNPDFLELAKCRKDVCKKLNLNESNVE 166 (181)
Q Consensus 87 ~~~~~~~~~~~~~~~~~~~~~~~l~~~i~~~~p~L~l~GLMTi~~~~~d~~~~~~~~F~~L~~l~~~l~~~~~~~~~~~~ 166 (181)
++++.+ .++|+|+|.|+|||++..++ .+..++.|+.++++++.|.+.. ......+
T Consensus 145 ----------------------~~~~~i-~~~~~l~l~Gl~th~~~~~~-~~~~~~~~~~~~~~~~~l~~~~-~~~~~~~ 199 (229)
T TIGR00044 145 ----------------------ELAIQI-EELKHLKLRGLMTIGAPTDS-HEDQEENFRFMKLLFWQIKQDS-PFGTIDT 199 (229)
T ss_pred ----------------------HHHHHH-hcCCCCeEEEEEEeCCCCCC-HHHHHHHHHHHHHHHHHHHhhc-CCCCCCE
Confidence 889988 57999999999999998755 4456789999999999998753 2123689
Q ss_pred EeeCCcchHHHHhc
Q psy2326 167 LSMGMSSDLRERES 180 (181)
Q Consensus 167 LSMGMS~D~~~AI~ 180 (181)
||||||+||+.|++
T Consensus 200 lS~G~t~~~~~a~~ 213 (229)
T TIGR00044 200 LSMGMSDDFEEAIA 213 (229)
T ss_pred EeeeCcHhHHHHHH
Confidence 99999999999985
No 5
>cd06824 PLPDE_III_Yggs_like Pyridoxal 5-phosphate (PLP)-binding TIM barrel domain of Type III PLP-Dependent Enzymes, Yggs-like proteins. This subfamily contains mainly uncharacterized proteobacterial proteins with similarity to the hypothetical Escherichia coli protein YggS, a homolog of yeast YBL036c, which is homologous to a Pseudomonas aeruginosa gene that is co-transcribed with a known proline biosynthetic gene. Like yeast YBL036c, Yggs is a single domain monomeric protein with a typical TIM-barrel fold. Its structure, which shows a covalently-bound PLP cofactor, is similar to the N-terminal domain of the fold type III PLP-dependent enzymes, bacterial alanine racemase and eukaryotic ornithine decarboxylase, which are two-domain dimeric proteins. YggS has not been characterized extensively and its biological function is still unkonwn.
Probab=99.90 E-value=7.4e-23 Score=170.75 Aligned_cols=138 Identities=34% Similarity=0.552 Sum_probs=117.1
Q ss_pred CceeeeecccccccHHhhhcCCCccEEEEeccHHHHHHHHHHHHhcCCCCCceEEEEEeCCCCCccCCCCccchhhhhhh
Q psy2326 7 DIRWHFIGHLQSNKVPKVIKVPNLEYIETIHDTRLATQVNNAWAKHQPDKKLKVFCQINTSGEENKHGAHPEHAEALVSH 86 (181)
Q Consensus 7 di~WHfIG~LQsNKvk~l~~~~~~~~I~sVDs~~lA~~L~~~~~~~~~~~~l~VliQVN~s~E~~K~Gv~p~~~~~~~~~ 86 (181)
.+.|||||++|.|+.+..+. ..+++++|||.+.++.|++.+.+.+. +++|+|+||++++.+|.|+.|+++.
T Consensus 72 ~~~~~~lg~~~~~~~~~~~~--~~~~~~~I~s~~~~~~l~~~a~~~g~--~~~v~l~id~~~Gm~R~Gi~~~~~~----- 142 (224)
T cd06824 72 DIEWHFIGPIQSNKTKLIAE--NFDWVHSVDRLKIAKRLNDQRPAGLP--PLNVCIQVNISGEDSKSGVAPEDAA----- 142 (224)
T ss_pred CeeEEEEcCchhhhHHHHHh--hCCEEEecCCHHHHHHHHHHHHhcCC--CCcEEEEEEcCCCCCCCCCCHHHHH-----
Confidence 48999999999999777765 57899999999999999999988776 8999999999988999999998887
Q ss_pred hccCCCCCcccCCCCCCchhHHHHHHHHHhhCCCceEeeeeecCCCCCCCCCCccHHHHHHHHHHHHHHHhcCCCCCCCE
Q psy2326 87 VINSCPNLEFTDKHGAHPEHAEALVSHVINSCPNLEFTGLMTIGKYGYDTKHGPNPDFLELAKCRKDVCKKLNLNESNVE 166 (181)
Q Consensus 87 ~~~~~~~~~~~~~~~~~~~~~~~l~~~i~~~~p~L~l~GLMTi~~~~~d~~~~~~~~F~~L~~l~~~l~~~~~~~~~~~~ 166 (181)
++++.+ ..+|+|++.|+||+++...+ .......|+.+.++.+.+++. ++. ...
T Consensus 143 ----------------------~~~~~i-~~~~~l~l~Gl~tH~a~~~~-~~~q~~~f~~~~~~~~~l~~~-~~~--~~~ 195 (224)
T cd06824 143 ----------------------ELAEAI-SQLPNLRLRGLMAIPAPTDD-EAAQRAAFKRLRQLFDQLKKQ-YPD--LDT 195 (224)
T ss_pred ----------------------HHHHHH-hcCCCCcEEEEEEeCCCCCC-hHHHHHHHHHHHHHHHHHHhh-CCC--CCE
Confidence 888888 57999999999999887655 334557899998888888653 443 468
Q ss_pred EeeCCcchHHHHhc
Q psy2326 167 LSMGMSSDLRERES 180 (181)
Q Consensus 167 LSMGMS~D~~~AI~ 180 (181)
+|||||+++..+.+
T Consensus 196 is~gnS~~~~~~~~ 209 (224)
T cd06824 196 LSMGMSGDLEAAIA 209 (224)
T ss_pred EeCcCcHhHHHHHH
Confidence 99999999987753
No 6
>cd00635 PLPDE_III_YBL036c_like Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins. This family contains mostly uncharacterized proteins, widely distributed among eukaryotes, bacteria and archaea, that bear similarity to the yeast hypothetical protein YBL036c, which is homologous to a Pseudomonas aeruginosa gene that is co-transcribed with a known proline biosynthetic gene. YBL036c is a single domain monomeric protein with a typical TIM barrel fold. It binds the PLP cofactor and has been shown to exhibit amino acid racemase activity. The YBL036c structure is similar to the N-terminal domain of the fold type III PLP-dependent enzymes, bacterial alanine racemase and eukaryotic ornithine decarboxylase, which are two-domain dimeric proteins. The lack of a second domain in YBL036c may explain limited D- to L-alanine racemase or non-specific racemase activity.
Probab=99.87 E-value=2.6e-21 Score=160.55 Aligned_cols=139 Identities=40% Similarity=0.606 Sum_probs=122.5
Q ss_pred CceeeeecccccccHHhhhcCCCccEEEEeccHHHHHHHHHHHHhcCCCCCceEEEEEeCCCCCccCCCCccchhhhhhh
Q psy2326 7 DIRWHFIGHLQSNKVPKVIKVPNLEYIETIHDTRLATQVNNAWAKHQPDKKLKVFCQINTSGEENKHGAHPEHAEALVSH 86 (181)
Q Consensus 7 di~WHfIG~LQsNKvk~l~~~~~~~~I~sVDs~~lA~~L~~~~~~~~~~~~l~VliQVN~s~E~~K~Gv~p~~~~~~~~~ 86 (181)
.+.|++||++|.++++.+++ ...++.+|||.+.++.|++.+.+.++ +++|+|+||||++.+|.|+.++++.
T Consensus 70 ~~~~~llg~~~~~~~~~~~~--~~~~~~~v~s~~~l~~l~~~a~~~~~--~~~v~lkvdtG~~~~R~G~~~~~~~----- 140 (222)
T cd00635 70 DIEWHFIGHLQTNKVKYAVR--LFDLIHSVDSLKLAEELNKRAEKEGR--VLDVLVQVNIGGEESKSGVAPEELE----- 140 (222)
T ss_pred CceEEEECccccccHHHHHh--hCCEEEEcCCHHHHHHHHHHHHhcCC--CCcEEEEEecCCCCCCCCCCHHHHH-----
Confidence 57899999999999999986 56899999999999999999988777 8999999999988899999999888
Q ss_pred hccCCCCCcccCCCCCCchhHHHHHHHHHhhCCCceEeeeeecCCCCCCCCCCccHHHHHHHHHHHHHHHhcCCCCCCCE
Q psy2326 87 VINSCPNLEFTDKHGAHPEHAEALVSHVINSCPNLEFTGLMTIGKYGYDTKHGPNPDFLELAKCRKDVCKKLNLNESNVE 166 (181)
Q Consensus 87 ~~~~~~~~~~~~~~~~~~~~~~~l~~~i~~~~p~L~l~GLMTi~~~~~d~~~~~~~~F~~L~~l~~~l~~~~~~~~~~~~ 166 (181)
++++.+ .++|+|++.|+||+++...+ .+...+.|+.+.++.+.+++..|+. ...
T Consensus 141 ----------------------~~~~~i-~~~~~l~~~Gi~sh~s~~~~-~~~~~~~~~~~~~~~~~l~~~~g~~--~~~ 194 (222)
T cd00635 141 ----------------------ELLEEI-AALPNLRIRGLMTIAPLTED-PEEVRPYFRELRELRDELGAKGGVN--LKE 194 (222)
T ss_pred ----------------------HHHHHH-HcCCCCcEEEEEEECCCCCC-hHHHHHHHHHHHHHHHHHHHhcCCC--CCE
Confidence 888888 57999999999999987755 3345678999999999998876554 689
Q ss_pred EeeCCcchHHHHhc
Q psy2326 167 LSMGMSSDLRERES 180 (181)
Q Consensus 167 LSMGMS~D~~~AI~ 180 (181)
+|+|||+||+.|++
T Consensus 195 is~G~t~~~~~~~~ 208 (222)
T cd00635 195 LSMGMSGDFEIAIE 208 (222)
T ss_pred EECcccHhHHHHHH
Confidence 99999999999874
No 7
>PF01168 Ala_racemase_N: Alanine racemase, N-terminal domain; InterPro: IPR001608 Alanine racemase plays a role in providing the D-alanine required for cell wall biosynthesis by isomerising L-alanine to D-alanine. Proteins containing this domain are found in both prokaryotes and eukaryotes [,]. The molecular structure of alanine racemase from Bacillus stearothermophilus was determined by X-ray crystallography to a resolution of 1.9 A []. The alanine racemase monomer is composed of two domains, an eight-stranded alpha/beta barrel at the N terminus, and a C-terminal domain essentially composed of beta-strands. The pyridoxal 5'-phosphate (PLP) cofactor lies in and above the mouth of the alpha/beta barrel and is covalently linked via an aldimine linkage to a lysine residue, which is at the C terminus of the first beta-strand of the alpha/beta barrel. This domain is also found in the PROSC (proline synthetase co-transcribed bacterial homolog) family of proteins, which are not known to have alanine racemase activity.; PDB: 3KW3_A 1B54_A 1CT5_A 2ODO_B 2RJG_A 3B8V_D 2RJH_D 3B8T_D 3B8W_B 3B8U_A ....
Probab=99.79 E-value=1.2e-18 Score=142.06 Aligned_cols=133 Identities=22% Similarity=0.290 Sum_probs=114.7
Q ss_pred ceeeeecccccccHHhhhcCCCccEEEEeccHHHHHHHHHHHHhcCCCCCceEEEEEeCCCCCccCCCCccchhhhhhhh
Q psy2326 8 IRWHFIGHLQSNKVPKVIKVPNLEYIETIHDTRLATQVNNAWAKHQPDKKLKVFCQINTSGEENKHGAHPEHAEALVSHV 87 (181)
Q Consensus 8 i~WHfIG~LQsNKvk~l~~~~~~~~I~sVDs~~lA~~L~~~~~~~~~~~~l~VliQVN~s~E~~K~Gv~p~~~~~~~~~~ 87 (181)
.++.++|+.+.++++.+++ + .++.+|||.+.++.|++.+.+.+. +++|+|+||+|. +|.|+.|+++.
T Consensus 66 ~~il~l~~~~~~~~~~~~~--~-~~~~~v~s~~~~~~l~~~~~~~~~--~~~v~l~vdtG~--~R~G~~~~~~~------ 132 (218)
T PF01168_consen 66 APILVLGPIPPEELEELVE--Y-NIIPTVDSLEQLEALSKAAKKQGK--PLKVHLKVDTGM--GRLGVRPEELE------ 132 (218)
T ss_dssp SEEEEESESTGGGHHHHHH--T-TEEEEE-SHHHHHHHHHHHHHHTS--TEEEEEEBESSS--SSSSBECHHHH------
T ss_pred CceEEEcCCChhhHHHHhh--C-cEEEEEchhhHHHHHHHHHHHcCC--ceEEEEeecccc--cccCCCHHHHH------
Confidence 4688899999999999988 6 899999999999999999999888 999999999994 49999998888
Q ss_pred ccCCCCCcccCCCCCCchhHHHHHHHHHhhCCCceEeeeeecCCCCCCCCCCccH-HHHHHHHHHHHHHHhcCCCCCCCE
Q psy2326 88 INSCPNLEFTDKHGAHPEHAEALVSHVINSCPNLEFTGLMTIGKYGYDTKHGPNP-DFLELAKCRKDVCKKLNLNESNVE 166 (181)
Q Consensus 88 ~~~~~~~~~~~~~~~~~~~~~~l~~~i~~~~p~L~l~GLMTi~~~~~d~~~~~~~-~F~~L~~l~~~l~~~~~~~~~~~~ 166 (181)
++++.+ ..+|+|++.|+||+.+..++. +..+. .|..+.++.+.+++. +.+ ...
T Consensus 133 ---------------------~l~~~i-~~~~~l~l~Gl~th~~~~d~~-~~~~~~q~~~~~~~~~~l~~~-~~~--~~~ 186 (218)
T PF01168_consen 133 ---------------------ELAEAI-KALPNLRLEGLMTHFAHADDP-DYTNQEQFERFRELAEALEKA-GIP--PPI 186 (218)
T ss_dssp ---------------------HHHHHH-HHTTTEEEEEEEEBGSSTTSS-CHHHHHHHHHHHHHHHHHHHT-TTT--CSE
T ss_pred ---------------------HHHHHH-hcCCCceEeeEeccccccCCH-HHHHHHHHHHHHHHHHHHHhc-cCC--Cce
Confidence 899998 568999999999999988653 22333 899999999999764 343 579
Q ss_pred EeeCCcchHHHHh
Q psy2326 167 LSMGMSSDLRERE 179 (181)
Q Consensus 167 LSMGMS~D~~~AI 179 (181)
+|||||+++..+.
T Consensus 187 ~s~g~S~~~~~~~ 199 (218)
T PF01168_consen 187 VSMGNSAAFLLAP 199 (218)
T ss_dssp EEEEBHHHHHHHG
T ss_pred ecCCCCcchhhcc
Confidence 9999999998875
No 8
>cd06821 PLPDE_III_D-TA Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme D-Threonine Aldolase. D-threonine aldolase (D-TA, EC 4.3.1.18) reversibly catalyzes the aldol cleavage of D-threonine into glycine and acetaldehyde, and the synthesis of D-threonine from glycine and acetaldehyde. Its activity is present in several genera of bacteria but not in fungi. It requires PLP and a divalent cation such as Co2+, Ni2+, Mn2+, or Mg2+ as cofactors for catalytic activity and thermal stability. Members of this subfamily show similarity to bacterial alanine racemase (AR), a fold type III PLP-dependent enzyme which contains an N-terminal PLP-binding TIM-barrel domain and a C-terminal beta-sandwich domain. AR exists as homodimers with active sites that lie at the interface between the TIM barrel domain of one subunit and the beta-sandwich domain of the other subunit. Based on its similarity to AR, it is possible that low specificity D-TAs also form dimers in solution. Experimental data show that
Probab=99.67 E-value=6e-16 Score=135.92 Aligned_cols=138 Identities=19% Similarity=0.257 Sum_probs=111.5
Q ss_pred ceeeeecccccccHHhhhcCCCccEEEEeccHHHHHHHHHHHHhcCCCCCceEEEEEeCCCCCccCCCCcc-chhhhhhh
Q psy2326 8 IRWHFIGHLQSNKVPKVIKVPNLEYIETIHDTRLATQVNNAWAKHQPDKKLKVFCQINTSGEENKHGAHPE-HAEALVSH 86 (181)
Q Consensus 8 i~WHfIG~LQsNKvk~l~~~~~~~~I~sVDs~~lA~~L~~~~~~~~~~~~l~VliQVN~s~E~~K~Gv~p~-~~~~~~~~ 86 (181)
+.||++|+.+.+.++.+.+.+...++.+|||.+.++.|++.+.+.+. +++|+|+||++ .+|+|+.++ ++.
T Consensus 81 l~~~~~~~~~~~~~~l~~~~~~~~~~~~Vds~~~l~~l~~~a~~~~~--~~~V~l~Vd~G--~~R~Gv~~~~~~~----- 151 (361)
T cd06821 81 LAYPLVGPNIERFLELAKKYPGTRFSALVDDLEAAEALSAAAGSAGL--TLSVLLDVNTG--MNRTGIAPGEDAE----- 151 (361)
T ss_pred EeCCCCHHHHHHHHHHHhhCCCCeEEEEECCHHHHHHHHHHHHHcCC--eEEEEEEeCCC--CCcCCCCChHHHH-----
Confidence 56999999888877766654445688999999999999999988877 89999999998 689999987 677
Q ss_pred hccCCCCCcccCCCCCCchhHHHHHHHHHhhCCCceEeeeeecCCCCCCCC-----CCccHHHHHHHHHHHHHHHhcCCC
Q psy2326 87 VINSCPNLEFTDKHGAHPEHAEALVSHVINSCPNLEFTGLMTIGKYGYDTK-----HGPNPDFLELAKCRKDVCKKLNLN 161 (181)
Q Consensus 87 ~~~~~~~~~~~~~~~~~~~~~~~l~~~i~~~~p~L~l~GLMTi~~~~~d~~-----~~~~~~F~~L~~l~~~l~~~~~~~ 161 (181)
++++.| .++|+|+|.|+|+++++.+... +..+..|+.+.++.+.+++. ++.
T Consensus 152 ----------------------~l~~~i-~~~~~l~l~Gl~~~~gh~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~-g~~ 207 (361)
T cd06821 152 ----------------------ELYRAI-ATLPGLVLAGLHAYDGHHRNTDLAEREAAADAAYKPVLALREALEAA-GLP 207 (361)
T ss_pred ----------------------HHHHHH-hhCCCceEeeEEeecCcccCCCHHHHHHHHHHHHHHHHHHHHHHHHC-CCC
Confidence 889888 5799999999999999865421 11345677888888888753 443
Q ss_pred CCCCEEeeCCcchHHHHhc
Q psy2326 162 ESNVELSMGMSSDLRERES 180 (181)
Q Consensus 162 ~~~~~LSMGMS~D~~~AI~ 180 (181)
...+|||+|++|..+.+
T Consensus 208 --~~~v~~GgS~~~~~~~~ 224 (361)
T cd06821 208 --VPELVAGGTPSFPFHAA 224 (361)
T ss_pred --CCEEEECCCcchhhhcc
Confidence 67999999999987643
No 9
>cd06820 PLPDE_III_LS_D-TA_like Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Low Specificity D-Threonine Aldolase-like. This subfamily is composed of uncharacterized bacterial proteins with similarity to low specificity D-threonine aldolase (D-TA), which is a fold type III PLP-dependent enzyme that catalyzes the interconversion between D-threonine/D-allo-threonine and glycine plus acetaldehyde. Both PLP and divalent cations (eg. Mn2+) are required for catalytic activity. Low specificity D-TAs show similarity to bacterial alanine racemase (AR), which contains an N-terminal PLP-binding TIM-barrel domain and a C-terminal beta-sandwich domain. AR exists as homodimers with active sites that lie at the interface between the TIM barrel domain of one subunit and the beta-sandwich domain of the other subunit. Based on its similarity to AR, it is possible that low specificity D-TAs also form dimers in solution. Experimental data show that the monomeric form of low specificity D-TAs exh
Probab=99.64 E-value=2e-15 Score=132.23 Aligned_cols=134 Identities=17% Similarity=0.267 Sum_probs=113.3
Q ss_pred ceeeeecccccccHHhhhcCCCccEEEEeccHHHHHHHHHHHHhcCCCCCceEEEEEeCCCCCccCCCCc-cchhhhhhh
Q psy2326 8 IRWHFIGHLQSNKVPKVIKVPNLEYIETIHDTRLATQVNNAWAKHQPDKKLKVFCQINTSGEENKHGAHP-EHAEALVSH 86 (181)
Q Consensus 8 i~WHfIG~LQsNKvk~l~~~~~~~~I~sVDs~~lA~~L~~~~~~~~~~~~l~VliQVN~s~E~~K~Gv~p-~~~~~~~~~ 86 (181)
+.||++|..+.+++..+++ +..++.+|||.+.++.|++.+.+.+. +++|+|+||++ .+|.|+.| +++.
T Consensus 76 i~~~~~~~~~~~~l~~l~~--~~~~~~~vds~~~l~~L~~~a~~~~~--~~~V~l~vd~G--~~R~Gv~~~~~~~----- 144 (353)
T cd06820 76 IAYPIVGRQKLERLRALAE--RVTLSVGVDSAEVARGLAEVAEGAGR--PLEVLVEVDSG--MNRCGVQTPEDAV----- 144 (353)
T ss_pred EECCcCCHHHHHHHHHHhc--CCCEEEEECCHHHHHHHHHHHHhcCC--eeEEEEEECCC--CCcCCCCChHHHH-----
Confidence 5799999999999999976 66899999999999999999988887 89999999998 68999998 7877
Q ss_pred hccCCCCCcccCCCCCCchhHHHHHHHHHhhCCCceEeeeeecCCCCCCCC---CCccHHHHHHHHHHHHHHHhcCCCCC
Q psy2326 87 VINSCPNLEFTDKHGAHPEHAEALVSHVINSCPNLEFTGLMTIGKYGYDTK---HGPNPDFLELAKCRKDVCKKLNLNES 163 (181)
Q Consensus 87 ~~~~~~~~~~~~~~~~~~~~~~~l~~~i~~~~p~L~l~GLMTi~~~~~d~~---~~~~~~F~~L~~l~~~l~~~~~~~~~ 163 (181)
++++.+ .++|+|+|.|+||+.+..++.. ...+..++.+.++.+.+++ .|+.
T Consensus 145 ----------------------~l~~~i-~~~~~l~l~Gi~~h~g~~~~~~~~~~~~~~~~~~~~~~~~~l~~-~g~~-- 198 (353)
T cd06820 145 ----------------------ALARAI-ASAPGLRFRGIFTYPGHSYAPGALEEAAADEAEALLAAAGILEE-AGLE-- 198 (353)
T ss_pred ----------------------HHHHHH-HhCCCcEEEEEEecCCccCChHHHHHHHHHHHHHHHHHHHHHHh-cCCC--
Confidence 889888 5789999999999999877522 1234567888888888876 4553
Q ss_pred CCEEeeCCcchHHHH
Q psy2326 164 NVELSMGMSSDLRER 178 (181)
Q Consensus 164 ~~~LSMGMS~D~~~A 178 (181)
...+|+|+|+++..+
T Consensus 199 ~~~vs~Ggs~t~~~~ 213 (353)
T cd06820 199 PPVVSGGSTPTLWRS 213 (353)
T ss_pred CCEEEeCcChhhhhh
Confidence 689999999998876
No 10
>cd06818 PLPDE_III_cryptic_DSD Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Bacterial Cryptic D-Serine Dehydratase. This subfamily is composed of Burkholderia cepacia cryptic D-serine dehydratase (cryptic DSD), which is also called D-serine deaminase, and similar bacterial proteins. Members of this subfamily are fold type III PLP-dependent enzymes with similarity to bacterial alanine racemase (AR), which contains an N-terminal PLP-binding TIM-barrel domain and a C-terminal beta-sandwich domain. AR exists as dimers with active sites that lie at the interface between the TIM barrel domain of one subunit and the beta-sandwich domain of the other subunit. Based on similarity, it is possible cryptic DSDs may also form dimers. Cryptic DSDs are distinct from the ubiquitous bacterial DSDs coded by the dsdA gene, mammalian L-serine dehydratases (LSD) and mammalian serine racemase (SerRac), which are fold type II PLP-dependent enzymes. At present, the enzymatic and biochemical properties
Probab=99.63 E-value=2.3e-15 Score=134.51 Aligned_cols=136 Identities=12% Similarity=0.200 Sum_probs=105.6
Q ss_pred ecccccccHHhhhc-CCCccEEEEeccHHHHHHHHHHHHhcCCCCCceEEEEEeCCCCCccCCCCc-cchhhhhhhhccC
Q psy2326 13 IGHLQSNKVPKVIK-VPNLEYIETIHDTRLATQVNNAWAKHQPDKKLKVFCQINTSGEENKHGAHP-EHAEALVSHVINS 90 (181)
Q Consensus 13 IG~LQsNKvk~l~~-~~~~~~I~sVDs~~lA~~L~~~~~~~~~~~~l~VliQVN~s~E~~K~Gv~p-~~~~~~~~~~~~~ 90 (181)
+|.-....+..+++ ++...+.-.|||.+.++.|++.+.+.++ +++|+|+||++ .+|.|+.+ +++.
T Consensus 81 ~~~~~~~~l~~l~~~~~~~~i~~~vds~~~l~~L~~~a~~~g~--~~~v~i~vn~g--~~R~G~~~~~~~~--------- 147 (382)
T cd06818 81 VGKANLRRLAALLAADPDFEFFCLVDSVDNVRALAAFFAALER--PLNVLIELGVP--GGRTGVRTEAEAL--------- 147 (382)
T ss_pred CChHHHHHHHHhhhcCCCCCEEEEECCHHHHHHHHHHHHhcCC--ceEEEEEECCC--CCCCCCCCHHHHH---------
Confidence 45555555666663 2245567899999999999999988877 89999999996 88999974 5566
Q ss_pred CCCCcccCCCCCCchhHHHHHHHHHhhCCCceEeeeeecCCCCCCC-----CCCccHHHHHHHHHHHHHHHhcCCCCCCC
Q psy2326 91 CPNLEFTDKHGAHPEHAEALVSHVINSCPNLEFTGLMTIGKYGYDT-----KHGPNPDFLELAKCRKDVCKKLNLNESNV 165 (181)
Q Consensus 91 ~~~~~~~~~~~~~~~~~~~l~~~i~~~~p~L~l~GLMTi~~~~~d~-----~~~~~~~F~~L~~l~~~l~~~~~~~~~~~ 165 (181)
++++.+ .++|+|+|.|+|+++++.+.. .+..++.|+.+.++++.|+++...+....
T Consensus 148 ------------------~l~~~i-~~~~~l~l~Gi~~~~G~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~~~~~~~~~~ 208 (382)
T cd06818 148 ------------------ALADAI-AASPALRLAGVEGYEGVAAHDDSEETLAAVRAFLARAVDLARRLAERGLFPDREL 208 (382)
T ss_pred ------------------HHHHHH-HcCCCceEeEEEeeccccccCCChhHHHHHHHHHHHHHHHHHHHHHcCCCCCCCC
Confidence 888888 579999999999998876432 12235679999999999987633232357
Q ss_pred EEeeCCcchHHHHhc
Q psy2326 166 ELSMGMSSDLRERES 180 (181)
Q Consensus 166 ~LSMGMS~D~~~AI~ 180 (181)
.+|||||+||+.+++
T Consensus 209 ilSgGgT~~~~~~~~ 223 (382)
T cd06818 209 ILTAGGSAWFDLVAE 223 (382)
T ss_pred EEEecCCHhHHHHHH
Confidence 999999999998764
No 11
>cd06815 PLPDE_III_AR_like_1 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase-like 1. This subfamily is composed of uncharacterized bacterial proteins with similarity to bacterial alanine racemases (AR), which are fold type III PLP-dependent enzymes containing an N-terminal PLP-binding TIM-barrel domain and a C-terminal beta-sandwich domain. AR exists as homodimers with active sites that lie at the interface between the TIM barrel domain of one subunit and the beta-sandwich domain of the other subunit. It catalyzes the interconversion between L- and D-alanine, which is an essential component of the peptidoglycan layer of bacterial cell walls. Members of this subfamily may act as PLP-dependent enzymes.
Probab=99.63 E-value=5.3e-15 Score=130.90 Aligned_cols=133 Identities=15% Similarity=0.125 Sum_probs=108.4
Q ss_pred ceeeeecccccccHHhhhcCCCccEEEEeccHHHHHHHHHHHHhcCCCCCceEEEEEeCCCCCccCCCCccchhhhhhhh
Q psy2326 8 IRWHFIGHLQSNKVPKVIKVPNLEYIETIHDTRLATQVNNAWAKHQPDKKLKVFCQINTSGEENKHGAHPEHAEALVSHV 87 (181)
Q Consensus 8 i~WHfIG~LQsNKvk~l~~~~~~~~I~sVDs~~lA~~L~~~~~~~~~~~~l~VliQVN~s~E~~K~Gv~p~~~~~~~~~~ 87 (181)
..|+++|..|.++++.+++ + ..+..|+|.+.|+.|++.+.+.++ +++|+|+|||| -+|.|+.|+++.
T Consensus 72 ~~illlg~~~~~~~~~~~~--~-~~~~~i~s~~~~~~l~~~a~~~~~--~~~vhlkvDtG--m~R~G~~~~e~~------ 138 (353)
T cd06815 72 GPKMLLRIPMLSEVEDVVK--Y-ADISLNSELETIKALSEEAKKQGK--IHKIILMVDLG--DLREGVLPEDLL------ 138 (353)
T ss_pred CCEEEECCCCHHHHHHHHh--h-cceeccChHHHHHHHHHHHHHcCC--ccceEEEEecC--CCccccCHHHHH------
Confidence 3899999999999999987 2 345668899999999999988776 89999999999 589999998877
Q ss_pred ccCCCCCcccCCCCCCchhHHHHHHHHHhhCCCceEeeeeecCCCCCCCCCCccHHHHHHHHHHHHHHHhcCCCCCCCEE
Q psy2326 88 INSCPNLEFTDKHGAHPEHAEALVSHVINSCPNLEFTGLMTIGKYGYDTKHGPNPDFLELAKCRKDVCKKLNLNESNVEL 167 (181)
Q Consensus 88 ~~~~~~~~~~~~~~~~~~~~~~l~~~i~~~~p~L~l~GLMTi~~~~~d~~~~~~~~F~~L~~l~~~l~~~~~~~~~~~~L 167 (181)
++++.+ .++|+|++.|+||+-+..++ .+..+..|+.+.++++.+.+..+.. ...+
T Consensus 139 ---------------------~~~~~i-~~~~~l~~~Gi~tH~~~~~~-~~~~~~~~~~~~~~~~~l~~~~g~~--~~~~ 193 (353)
T cd06815 139 ---------------------DFVEEI-LKLPGIELVGIGTNLGCYGG-VLPTEENMGKLVELKEEIEKEFGIK--LPII 193 (353)
T ss_pred ---------------------HHHHHH-hCCCCcEEEecccCccccCC-CCCCHHHHHHHHHHHHHHHHhhCCC--CCEE
Confidence 888888 67999999999999876543 2223456888888888887533432 4689
Q ss_pred eeCCcchHHHH
Q psy2326 168 SMGMSSDLRER 178 (181)
Q Consensus 168 SMGMS~D~~~A 178 (181)
|||||+++..+
T Consensus 194 ~~~~S~~~~~~ 204 (353)
T cd06815 194 SGGNSASLPLL 204 (353)
T ss_pred eccchHHHHHH
Confidence 99999998865
No 12
>cd00430 PLPDE_III_AR Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase. This family includes predominantly bacterial alanine racemases (AR), some serine racemases (SerRac), and putative bifunctional enzymes containing N-terminal UDP-N-acetylmuramoyl-tripeptide:D-alanyl-D-alanine ligase (murF) and C-terminal AR domains. These proteins are fold type III PLP-dependent enzymes that play essential roles in peptidoglycan biosynthesis. AR catalyzes the interconversion between L- and D-alanine, which is an essential component of the peptidoglycan layer of bacterial cell walls. SerRac converts L-serine into its D-enantiomer (D-serine) for peptidoglycan synthesis. murF catalyzes the addition of D-Ala-D-Ala to UDPMurNAc-tripeptide, the final step in the synthesis of the cytoplasmic precursor of bacterial cell wall peptidoglycan. Members of this family contain an N-terminal PLP-binding TIM-barrel domain and a C-terminal beta-sandwich domain. They exist as homodimers with activ
Probab=99.58 E-value=2.4e-14 Score=126.04 Aligned_cols=132 Identities=18% Similarity=0.225 Sum_probs=108.5
Q ss_pred CceeeeecccccccHHhhhcCCCccEEEEeccHHHHHHHHHHHHhcCCCCCceEEEEEeCCCCCccCCCCccchhhhhhh
Q psy2326 7 DIRWHFIGHLQSNKVPKVIKVPNLEYIETIHDTRLATQVNNAWAKHQPDKKLKVFCQINTSGEENKHGAHPEHAEALVSH 86 (181)
Q Consensus 7 di~WHfIG~LQsNKvk~l~~~~~~~~I~sVDs~~lA~~L~~~~~~~~~~~~l~VliQVN~s~E~~K~Gv~p~~~~~~~~~ 86 (181)
+..|+++|+.|.++++.+++ ..++.+|||.+.++.|++.+++.+. +++|+|+||++ .+|+|+.++++.
T Consensus 73 ~~~i~~~~~~~~~~~~~~~~---~~i~~~vds~~~l~~l~~~a~~~~~--~~~v~l~vdtG--~~R~G~~~~e~~----- 140 (367)
T cd00430 73 TAPILVLGGTPPEEAEEAIE---YDLTPTVSSLEQAEALSAAAARLGK--TLKVHLKIDTG--MGRLGFRPEEAE----- 140 (367)
T ss_pred CCCEEEEeCCCHHHHHHHHH---cCCEEEECCHHHHHHHHHHHHHcCC--ceEEEEEEcCC--CCCCCCCHHHHH-----
Confidence 45899999999999999986 3678999999999999999888776 89999999998 499999999888
Q ss_pred hccCCCCCcccCCCCCCchhHHHHHHHHHhhCCCceEeeeeecCCCCCCC-CCCccHHHHHHHHHHHHHHHhcCCCCCCC
Q psy2326 87 VINSCPNLEFTDKHGAHPEHAEALVSHVINSCPNLEFTGLMTIGKYGYDT-KHGPNPDFLELAKCRKDVCKKLNLNESNV 165 (181)
Q Consensus 87 ~~~~~~~~~~~~~~~~~~~~~~~l~~~i~~~~p~L~l~GLMTi~~~~~d~-~~~~~~~F~~L~~l~~~l~~~~~~~~~~~ 165 (181)
++++.+ .++++|+|.|+||+.+..++. .+.....++.+.++.+.+.+ .++. ..
T Consensus 141 ----------------------~~~~~i-~~~~~l~~~Gi~~H~~~~~~~~~~~~~~q~~~~~~~~~~l~~-~g~~--~~ 194 (367)
T cd00430 141 ----------------------ELLEAL-KALPGLELEGVFTHFATADEPDKAYTRRQLERFLEALAELEE-AGIP--PP 194 (367)
T ss_pred ----------------------HHHHHH-HhCCCceEEEEEEECCCCCCCCcHHHHHHHHHHHHHHHHHHh-cCCC--CC
Confidence 888888 578999999999999876553 12234566777777777765 3543 56
Q ss_pred EEeeCCcchHH
Q psy2326 166 ELSMGMSSDLR 176 (181)
Q Consensus 166 ~LSMGMS~D~~ 176 (181)
.+|+|.|..+.
T Consensus 195 ~v~~g~s~~~~ 205 (367)
T cd00430 195 LKHLANSAAIL 205 (367)
T ss_pred cEEccCCHHHh
Confidence 89999998764
No 13
>cd06808 PLPDE_III Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes. The fold type III PLP-dependent enzyme family is predominantly composed of two-domain proteins with similarity to bacterial alanine racemases (AR) including eukaryotic ornithine decarboxylases (ODC), prokaryotic diaminopimelate decarboxylases (DapDC), biosynthetic arginine decarboxylases (ADC), carboxynorspermidine decarboxylases (CANSDC), and similar proteins. AR-like proteins contain an N-terminal PLP-binding TIM-barrel domain and a C-terminal beta-sandwich domain. They exist as homodimers with active sites that lie at the interface between the TIM barrel domain of one subunit and the beta-sandwich domain of the other subunit. These proteins play important roles in the biosynthesis of amino acids and polyamine. The family also includes the single-domain YBL036c-like proteins, which contain a single PLP-binding TIM-barrel domain without any N- or C-terminal extensions. Due to the lack of a second domain, these p
Probab=99.50 E-value=3.5e-13 Score=108.28 Aligned_cols=137 Identities=19% Similarity=0.225 Sum_probs=109.2
Q ss_pred Cceeeeecccc-cccHHhhhcCCCccEEEEeccHHHHHHHHHHHHhcCCCCCceEEEEEeCCCCCccCCCCccchhhhhh
Q psy2326 7 DIRWHFIGHLQ-SNKVPKVIKVPNLEYIETIHDTRLATQVNNAWAKHQPDKKLKVFCQINTSGEENKHGAHPEHAEALVS 85 (181)
Q Consensus 7 di~WHfIG~LQ-sNKvk~l~~~~~~~~I~sVDs~~lA~~L~~~~~~~~~~~~l~VliQVN~s~E~~K~Gv~p~~~~~~~~ 85 (181)
+.+|+|.|+.+ .+.++.+++ .-..+..|||.+-++.|++.+.+.+. +++|+|+||++...+|.|+.++++.
T Consensus 59 ~~~I~~~~~~~~~~~l~~~~~--~~~~~~~ids~~~l~~l~~~~~~~~~--~~~v~lrv~~g~~~~R~G~~~~e~~---- 130 (211)
T cd06808 59 PEPILFLGPCKQVSELEDAAE--QGVIVVTVDSLEELEKLEEAALKAGP--PARVLLRIDTGDENGKFGVRPEELK---- 130 (211)
T ss_pred HHHEEEcCCCCCHHHHHHHHH--cCCCEEEeCCHHHHHHHHHHHHHhCC--CceEEEEEcCCCCCCCCCCCHHHHH----
Confidence 46799999999 688888876 32456799999999999999988777 8999999999867789999999888
Q ss_pred hhccCCCCCcccCCCCCCchhHHHHHHHHHhhCCCceEeeeeecCCCCCCCCCCccHHHHHHHHHHHHHHHhcCCCCCCC
Q psy2326 86 HVINSCPNLEFTDKHGAHPEHAEALVSHVINSCPNLEFTGLMTIGKYGYDTKHGPNPDFLELAKCRKDVCKKLNLNESNV 165 (181)
Q Consensus 86 ~~~~~~~~~~~~~~~~~~~~~~~~l~~~i~~~~p~L~l~GLMTi~~~~~d~~~~~~~~F~~L~~l~~~l~~~~~~~~~~~ 165 (181)
++++.+ .++|+|+|.|+||+.+..+.........++.+.++.+.+.+ .+.. ..
T Consensus 131 -----------------------~~~~~i-~~~~~l~l~Gl~~H~~~~~~~~~~~~~~~~~~~~~~~~l~~-~~~~--~~ 183 (211)
T cd06808 131 -----------------------ALLERA-KELPHLRLVGLHTHFGSADEDYSPFVEALSRFVAALDQLGE-LGID--LE 183 (211)
T ss_pred -----------------------HHHHHH-HhCCCCcEEEEEEecCCCCCCHHHHHHHHHHHHHHHHHHHh-cCCC--CC
Confidence 888888 57899999999999987654112234556777777777765 4543 67
Q ss_pred EEeeCCcchHHHH
Q psy2326 166 ELSMGMSSDLRER 178 (181)
Q Consensus 166 ~LSMGMS~D~~~A 178 (181)
.+|+|+|..+...
T Consensus 184 ~i~~Ggg~~~~~~ 196 (211)
T cd06808 184 QLSIGGSFAILYL 196 (211)
T ss_pred EEEECCCCCcCcC
Confidence 8999999876543
No 14
>TIGR00492 alr alanine racemase. This enzyme interconverts L-alanine and D-alanine. Its primary function is to generate D-alanine for cell wall formation. With D-alanine-D-alanine ligase, it makes up the D-alanine branch of the peptidoglycan biosynthetic route. It is a monomer with one pyridoxal phosphate per subunit. In E. coli, the ortholog is duplicated so that a second isozyme, DadX, is present. DadX, a paralog of the biosynthetic Alr, is induced by D- or L-alanine and is involved in catabolism.
Probab=99.49 E-value=3.4e-13 Score=119.29 Aligned_cols=134 Identities=14% Similarity=0.212 Sum_probs=106.9
Q ss_pred CceeeeecccccccHHhhhcCCCccEEEEeccHHHHHHHHHHHHhcCCCCCceEEEEEeCCCCCccCCCCccchhhhhhh
Q psy2326 7 DIRWHFIGHLQSNKVPKVIKVPNLEYIETIHDTRLATQVNNAWAKHQPDKKLKVFCQINTSGEENKHGAHPEHAEALVSH 86 (181)
Q Consensus 7 di~WHfIG~LQsNKvk~l~~~~~~~~I~sVDs~~lA~~L~~~~~~~~~~~~l~VliQVN~s~E~~K~Gv~p~~~~~~~~~ 86 (181)
+..|+++|+.+...+..+++ ..++.+|||.+.++.|++.+.+.++ +++|+|+||+| -+|.|+.|+++.
T Consensus 74 ~~~ilvl~~~~~~~~~~~~~---~~l~~~v~s~~~l~~l~~~a~~~~~--~~~V~l~VdtG--m~R~Gi~~~e~~----- 141 (367)
T TIGR00492 74 TAPILLLGGFFAEDLKILAA---WDLTTTVHSVEQLQALEEALLKEPK--RLKVHLKIDTG--MNRLGVKPDEAA----- 141 (367)
T ss_pred CCCEEEEeCCCHHHHHHHHH---cCCEEEECCHHHHHHHHHHHHHcCC--ceEEEEEeeCC--CCCCCCChHHHH-----
Confidence 45799999998666776665 4679999999999999999988776 89999999999 599999999887
Q ss_pred hccCCCCCcccCCCCCCchhHHHHHHHHHhhCCCce-EeeeeecCCCCCCCC-CCccHHHHHHHHHHHHHHHhcCCCCCC
Q psy2326 87 VINSCPNLEFTDKHGAHPEHAEALVSHVINSCPNLE-FTGLMTIGKYGYDTK-HGPNPDFLELAKCRKDVCKKLNLNESN 164 (181)
Q Consensus 87 ~~~~~~~~~~~~~~~~~~~~~~~l~~~i~~~~p~L~-l~GLMTi~~~~~d~~-~~~~~~F~~L~~l~~~l~~~~~~~~~~ 164 (181)
++++.+ .++|+|+ +.|+||+.+..++.. +..+..|+.+.++.+.+.+. +++ .
T Consensus 142 ----------------------~~~~~i-~~~~~l~~l~Gi~tH~~~~~~~~~~~~~~q~~~f~~~~~~l~~~-g~~--~ 195 (367)
T TIGR00492 142 ----------------------LFVQKL-RQLKKFLELEGIFSHFATADEPKTGTTQKQIERFNSFLEGLKQQ-NIE--P 195 (367)
T ss_pred ----------------------HHHHHH-HhCCCCCCceEEEcCCCCCCCCCChHHHHHHHHHHHHHHHHhhc-CCC--C
Confidence 677777 5799999 999999988754422 12355677787888777653 543 4
Q ss_pred CEEeeCCcchHHHH
Q psy2326 165 VELSMGMSSDLRER 178 (181)
Q Consensus 165 ~~LSMGMS~D~~~A 178 (181)
..+|||+|+++..+
T Consensus 196 ~~~~~~nS~~~~~~ 209 (367)
T TIGR00492 196 PFRHIANSAAILNW 209 (367)
T ss_pred CcEEccCCHHHhCC
Confidence 68999999987643
No 15
>cd06819 PLPDE_III_LS_D-TA Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Low Specificity D-Threonine Aldolase. Low specificity D-threonine aldolase (Low specificity D-TA, EC 4.3.1.18), encoded by dtaAS gene from Arthrobacter sp. strain DK-38, is the prototype of this subfamily. Low specificity D-TAs are fold type III PLP-dependent enzymes that catalyze the interconversion between D-threonine/D-allo-threonine and glycine plus acetaldehyde. Both PLP and divalent cations (eg. Mn2+) are required for catalytic activity. Members of this subfamily show similarity to bacterial alanine racemase (AR), which contains an N-terminal PLP-binding TIM-barrel domain and a C-terminal beta-sandwich domain. AR exists as homodimers with active sites that lie at the interface between the TIM barrel domain of one subunit and the beta-sandwich domain of the other subunit. Based on its similarity to AR, it is possible that low specificity D-TAs also form dimers in solution. Experimental data show that t
Probab=99.42 E-value=1.1e-12 Score=115.07 Aligned_cols=134 Identities=15% Similarity=0.164 Sum_probs=104.1
Q ss_pred eeeeecccccccHHhhhcCCCccEEEEeccHHHHHHHHHHHHhcCCCCCceEEEEEeCCCCCccCCCC-ccchhhhhhhh
Q psy2326 9 RWHFIGHLQSNKVPKVIKVPNLEYIETIHDTRLATQVNNAWAKHQPDKKLKVFCQINTSGEENKHGAH-PEHAEALVSHV 87 (181)
Q Consensus 9 ~WHfIG~LQsNKvk~l~~~~~~~~I~sVDs~~lA~~L~~~~~~~~~~~~l~VliQVN~s~E~~K~Gv~-p~~~~~~~~~~ 87 (181)
.++++|.-....+..++. ...+..+|||.+.++.|++.+.+.+. +++|+|+||++ .+|+|+. ++++.
T Consensus 81 ~~~~~~~~~~~~~~~~~~--~~~i~~~vDs~~~l~~l~~~a~~~~~--~~~V~l~vd~G--~~R~Gv~~~~~~~------ 148 (358)
T cd06819 81 TNEVVGPAKIARLAALAR--RAPLIVCVDHPDNVRALAAAAVEAGV--RLDVLVEIDVG--QGRCGVPPGEAAL------ 148 (358)
T ss_pred ECCcCCHHHHHHHHHHhc--CCCEEEEECCHHHHHHHHHHHHhcCC--ceEEEEEECCC--CCcCCCCChHHHH------
Confidence 355667666666656654 56689999999999999999988877 89999999998 6799998 56677
Q ss_pred ccCCCCCcccCCCCCCchhHHHHHHHHHhhCCCceEeeeeecCCCCCCCC------CCccHHHHHHHHHHHHHHHhcCCC
Q psy2326 88 INSCPNLEFTDKHGAHPEHAEALVSHVINSCPNLEFTGLMTIGKYGYDTK------HGPNPDFLELAKCRKDVCKKLNLN 161 (181)
Q Consensus 88 ~~~~~~~~~~~~~~~~~~~~~~l~~~i~~~~p~L~l~GLMTi~~~~~d~~------~~~~~~F~~L~~l~~~l~~~~~~~ 161 (181)
++++.+ .++|+|++.|+|+++++.+... ...+..++.+.++.+.+++ .|+.
T Consensus 149 ---------------------~l~~~i-~~~~~l~l~Gi~~y~G~~~h~~~~~~~~~~~~~~~~~~~~~~~~l~~-~g~~ 205 (358)
T cd06819 149 ---------------------ALARTI-AALPGLRFAGLQAYHGHLQHIRDYEERRAAIAEAAEALQATRDALEA-AGLP 205 (358)
T ss_pred ---------------------HHHHHH-HhCCCceEeEEEeeCchhccCCCHHHHHHHHHHHHHHHHHHHHHHHh-CCCC
Confidence 888888 5789999999999998754211 1124566777778888774 3553
Q ss_pred CCCCEEeeCCcchHHHHh
Q psy2326 162 ESNVELSMGMSSDLRERE 179 (181)
Q Consensus 162 ~~~~~LSMGMS~D~~~AI 179 (181)
...+|+|+|+++..+.
T Consensus 206 --~~~vsgGgs~~~~~~~ 221 (358)
T cd06819 206 --CEIVTGGGTGTYEFEA 221 (358)
T ss_pred --CCEEecCCCcChhhhc
Confidence 6789999999998754
No 16
>cd07376 PLPDE_III_DSD_D-TA_like Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes Similar to D-Serine Dehydratase and D-Threonine Aldolase. This family includes eukaryotic D-serine dehydratases (DSD), cryptic DSDs from bacteria, D-threonine aldolases (D-TA), low specificity D-TAs, and similar uncharacterized proteins. DSD catalyzes the dehydration of D-serine to aminoacrylate, which is rapidly hydrolyzed to pyruvate and ammonia. D-TA reversibly catalyzes the aldol cleavage of D-threonine into glycine and acetaldehyde, and the synthesis of D-threonine from glycine and acetaldehyde. Members of this family are fold type III PLP-dependent enzymes, similar to bacterial alanine racemase (AR), which contains an N-terminal PLP-binding TIM barrel domain and a C-terminal beta-sandwich domain. AR exists as homodimers with active sites that lie at the interface between the TIM barrel domain of one subunit and the beta-sandwich domain of the other subunit. Based on similarity to AR, it is poss
Probab=99.41 E-value=3.3e-12 Score=111.70 Aligned_cols=133 Identities=18% Similarity=0.245 Sum_probs=94.1
Q ss_pred ecccc-cccHHhhhcCCC--ccEEEEeccHHHHHHHHHHHHhcCCCCCceEEEEEeCCCCCccCCCCccchhhhhhhhcc
Q psy2326 13 IGHLQ-SNKVPKVIKVPN--LEYIETIHDTRLATQVNNAWAKHQPDKKLKVFCQINTSGEENKHGAHPEHAEALVSHVIN 89 (181)
Q Consensus 13 IG~LQ-sNKvk~l~~~~~--~~~I~sVDs~~lA~~L~~~~~~~~~~~~l~VliQVN~s~E~~K~Gv~p~~~~~~~~~~~~ 89 (181)
-|+++ .+|++.++.+-. ..+...|||.+.++.|++.+.+.+. +++|+|+||++ .+|.|+.|++..
T Consensus 66 ~~~~~~~~~~~~~~~l~~~~~~i~~~Vds~~~l~~l~~~a~~~~~--~~~V~l~ID~G--~~R~Gv~~~~~~-------- 133 (345)
T cd07376 66 AYPLVGPAAIARLAGLLRQEAEFHVLVDSPEALAALAAFAAAHGV--RLRVMLEVDVG--GHRSGVRPEEAA-------- 133 (345)
T ss_pred ECCcCCHHHHHHHHHHHhcCCeEEEEECCHHHHHHHHHHHHhcCC--eeEEEEEeCCC--CCcCCCCCcHHH--------
Confidence 36887 788887763211 3467789999999999999988877 89999999998 589999986554
Q ss_pred CCCCCcccCCCCCCchhHHHHHH--HHHhhCCCceEeeeeecCCCCCCCCC---CccHHHHHHHHHHHHHHHh-cCCCCC
Q psy2326 90 SCPNLEFTDKHGAHPEHAEALVS--HVINSCPNLEFTGLMTIGKYGYDTKH---GPNPDFLELAKCRKDVCKK-LNLNES 163 (181)
Q Consensus 90 ~~~~~~~~~~~~~~~~~~~~l~~--~i~~~~p~L~l~GLMTi~~~~~d~~~---~~~~~F~~L~~l~~~l~~~-~~~~~~ 163 (181)
.++. .+ .++|+|+|.|+||+.+..++... ..+..+..+..+++.+... .|+.
T Consensus 134 -------------------~l~~~~~i-~~~~~l~l~Gl~~h~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~-- 191 (345)
T cd07376 134 -------------------ALALADAV-QASPGLRLAGVMAYEGHIYGAGGAREGAQARDQAVAAVRAAAAAAERGLA-- 191 (345)
T ss_pred -------------------HHHHHHHh-ccCCCeEEeEEEeecchhccCCCHHHHHHHHHHHHHHHHHHHHHHHcCCC--
Confidence 3333 23 36899999999999998765321 0123345555544433221 2443
Q ss_pred CCEEeeCCcchHHHHh
Q psy2326 164 NVELSMGMSSDLRERE 179 (181)
Q Consensus 164 ~~~LSMGMS~D~~~AI 179 (181)
...+|+|+|+++..+.
T Consensus 192 ~~~vs~G~S~~~~~~~ 207 (345)
T cd07376 192 CPTVSGGGTPTYQLTA 207 (345)
T ss_pred CCEEEeCCCcChhhcc
Confidence 5689999999997653
No 17
>cd06811 PLPDE_III_yhfX_like Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme yhfX. This subfamily is composed of the uncharacterized protein yhfX from Escherichia coli K-12 and similar bacterial proteins. These proteins are homologous to bacterial alanine racemases (AR), which are fold type III PLP-dependent enzymes containing an N-terminal PLP-binding TIM-barrel domain and a C-terminal beta-sandwich domain. AR exists as homodimers with active sites that lie at the interface between the TIM barrel domain of one subunit and the beta-sandwich domain of the other subunit. It catalyzes the interconversion between L- and D-alanine, which is an essential component of the peptidoglycan layer of bacterial cell walls. Members of this subfamily may act as PLP-dependent enzymes.
Probab=99.38 E-value=4.5e-12 Score=114.05 Aligned_cols=137 Identities=18% Similarity=0.320 Sum_probs=105.6
Q ss_pred Cceeeeecccc---cccHHhhhcCCCccEEEEeccHHHHHHHHHHHHhcCCCCCceEEEEEeCCCCC----ccCCCCccc
Q psy2326 7 DIRWHFIGHLQ---SNKVPKVIKVPNLEYIETIHDTRLATQVNNAWAKHQPDKKLKVFCQINTSGEE----NKHGAHPEH 79 (181)
Q Consensus 7 di~WHfIG~LQ---sNKvk~l~~~~~~~~I~sVDs~~lA~~L~~~~~~~~~~~~l~VliQVN~s~E~----~K~Gv~p~~ 79 (181)
.+.|+.||+++ .++++.+++ ..-.+.+|||.+.++.|++++.+.++ +++|+|+||++.+- ++.|+++++
T Consensus 96 Gi~~~~I~~l~~~~~~el~~~v~--~~~~~i~V~s~~~l~~L~~~A~~~g~--~~~V~LrVdtg~~ri~~g~~~G~~~~e 171 (382)
T cd06811 96 GLPLGHVGHLVQIPRHQVPAVLA--MRPEVITVYSLEKAREISDAAVELGR--VQDVLLRVYGDEDTLYPGQEGGFPLEE 171 (382)
T ss_pred CCCHHhEEEccCCCHHHHHHHHH--cCCCEEEECCHHHHHHHHHHHHHcCC--ceEEEEEEECCCCccccCccceecHHH
Confidence 46788899877 678888876 32247999999999999999988887 89999999998653 467999988
Q ss_pred hhhhhhhhccCCCCCcccCCCCCCchhHHHHHHHHHhhCCCceEeeeeecCCCCCCCCC---CccHHHHHHHHHHHHHHH
Q psy2326 80 AEALVSHVINSCPNLEFTDKHGAHPEHAEALVSHVINSCPNLEFTGLMTIGKYGYDTKH---GPNPDFLELAKCRKDVCK 156 (181)
Q Consensus 80 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~i~~~~p~L~l~GLMTi~~~~~d~~~---~~~~~F~~L~~l~~~l~~ 156 (181)
+. ++++.+ .++|+|++.|++.++...+|... ...+.++.+.++++.+++
T Consensus 172 ~~---------------------------~~~~~i-~~l~~l~l~Githf~~~~~d~~~~~~~~~~~~~~l~~~~~~l~~ 223 (382)
T cd06811 172 LP---------------------------AVLAAI-KALPGIRIAGLTSFPCFLYDEEQGDIAPTPNLFTLLKAKELLEK 223 (382)
T ss_pred HH---------------------------HHHHHH-HcCCCcEEEeEcccchhhcccCcccccHHHHHHHHHHHHHHHHH
Confidence 88 888888 67999999999999876444322 134467888888888876
Q ss_pred hcCCCCCCCEEeeC---CcchHHHH
Q psy2326 157 KLNLNESNVELSMG---MSSDLRER 178 (181)
Q Consensus 157 ~~~~~~~~~~LSMG---MS~D~~~A 178 (181)
. +.. ...+||| +|.++..+
T Consensus 224 ~-g~~--~~~is~Gga~ss~~l~~~ 245 (382)
T cd06811 224 R-GIE--ILQLNAPSATSCATLPLL 245 (382)
T ss_pred C-CCC--CeEEccCCCcchhhHHHH
Confidence 4 543 6789986 55666443
No 18
>cd06810 PLPDE_III_ODC_DapDC_like Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Ornithine and Diaminopimelate Decarboxylases, and Related Enzymes. This family includes eukaryotic ornithine decarboxylase (ODC, EC 4.1.1.17), diaminopimelate decarboxylase (DapDC, EC 4.1.1.20), plant and prokaryotic biosynthetic arginine decarboxylase (ADC, EC 4.1.1.19), carboxynorspermidine decarboxylase (CANSDC), and ODC-like enzymes from diverse bacterial species. These proteins are fold type III PLP-dependent enzymes that catalyze essential steps in the biosynthesis of polyamine and lysine. ODC and ADC participate in alternative pathways of the biosynthesis of putrescine, which is the precursor of aliphatic polyamines in many organisms. ODC catalyzes the direct synthesis of putrescine from L-ornithine, while ADC converts L-arginine to agmatine, which is hydrolysed to putrescine by agmatinase in a pathway that exists only in plants and bacteria. DapDC converts meso-2,6-diaminoheptanedioate to
Probab=99.20 E-value=2e-10 Score=100.58 Aligned_cols=129 Identities=13% Similarity=0.133 Sum_probs=99.9
Q ss_pred eeeccccc-ccHHhhhcCCCcc-EEEEeccHHHHHHHHHHHHhcCCCCCceEEEEEeCCC-----------CCccCCCCc
Q psy2326 11 HFIGHLQS-NKVPKVIKVPNLE-YIETIHDTRLATQVNNAWAKHQPDKKLKVFCQINTSG-----------EENKHGAHP 77 (181)
Q Consensus 11 HfIG~LQs-NKvk~l~~~~~~~-~I~sVDs~~lA~~L~~~~~~~~~~~~l~VliQVN~s~-----------E~~K~Gv~p 77 (181)
.|-|+..+ ..++.+++ .. .+-+|||.+.++.|++.+.+.++ +++|+|+||++. +.+|+|+++
T Consensus 73 v~~gp~~~~~~l~~~~~---~~~~~~~vds~~el~~l~~~~~~~~~--~~~v~lrin~g~~~~~~~~~~~~~~srfGi~~ 147 (368)
T cd06810 73 IFTGPAKSVSEIEAALA---SGVDHIVVDSLDELERLNELAKKLGP--KARILLRVNPDVSAGTHKISTGGLKSKFGLSL 147 (368)
T ss_pred EEcCCCCCHHHHHHHHH---CCCCEEEeCCHHHHHHHHHHHHHhCC--CCeEEEEECCCCCCCcccCccCCCCCCcCCCH
Confidence 34466544 56777765 24 68999999999999999887776 899999999973 458999999
Q ss_pred cchhhhhhhhccCCCCCcccCCCCCCchhHHHHHHHHHhhCCCceEeeeeecCCCCCCCCCCccHHHHHHHHHHHHHHHh
Q psy2326 78 EHAEALVSHVINSCPNLEFTDKHGAHPEHAEALVSHVINSCPNLEFTGLMTIGKYGYDTKHGPNPDFLELAKCRKDVCKK 157 (181)
Q Consensus 78 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~i~~~~p~L~l~GLMTi~~~~~d~~~~~~~~F~~L~~l~~~l~~~ 157 (181)
+++. ++++.+ .+++ |++.|+|++-+......+.....|+.+.++.+++++
T Consensus 148 ~e~~---------------------------~~~~~~-~~~~-l~l~Gl~~H~gs~~~d~~~~~~~~~~~~~~~~~l~~- 197 (368)
T cd06810 148 SEAR---------------------------AALERA-KELD-LRLVGLHFHVGSQILDLETIVQALSDARELIEELVE- 197 (368)
T ss_pred HHHH---------------------------HHHHHH-HhCC-CcEEEEEEcCCcCCCCHHHHHHHHHHHHHHHHHHHh-
Confidence 9888 788877 5677 999999987664432133456778899999999887
Q ss_pred cCCCCCCCEEee--CCcchHH
Q psy2326 158 LNLNESNVELSM--GMSSDLR 176 (181)
Q Consensus 158 ~~~~~~~~~LSM--GMS~D~~ 176 (181)
.+.+ +..||| ||+.||.
T Consensus 198 ~g~~--~~~id~GGG~~~~y~ 216 (368)
T cd06810 198 MGFP--LEMLDLGGGLGIPYD 216 (368)
T ss_pred cCCC--CCEEEeCCCcccccC
Confidence 4553 789999 6988874
No 19
>cd06817 PLPDE_III_DSD Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Eukaryotic D-Serine Dehydratase. This subfamily is composed of chicken D-serine dehydratase (DSD, EC 4.3.1.18) and similar eukaryotic proteins. Chicken DSD catalyzes the dehydration of D-serine to aminoacrylate, which is rapidly hydrolyzed to pyruvate and ammonia. It is a fold type III PLP-dependent enzyme with similarity to bacterial alanine racemase (AR), which contains an N-terminal PLP-binding TIM-barrel domain and a C-terminal beta-sandwich domain. AR exists as dimers with active sites that lie at the interface between the TIM barrel domain of one subunit and the beta-sandwich domain of the other subunit. Experimental data suggest that chicken DSD also exists as dimers. Sequence comparison and biochemical experiments show that chicken DSD is distinct from the ubiquitous bacterial DSDs coded by dsdA gene, mammalian L-serine dehydratases (LSD) and mammalian serine racemase (SerRac), which are fold type II PL
Probab=99.18 E-value=3.1e-10 Score=102.77 Aligned_cols=133 Identities=15% Similarity=0.274 Sum_probs=101.1
Q ss_pred eec-ccccccHHhhhcCC-Ccc-EEEEeccHHHHHHHHHH-HHhcCCCCCceEEEEEeCCCCCccCCCCccc--hhhhhh
Q psy2326 12 FIG-HLQSNKVPKVIKVP-NLE-YIETIHDTRLATQVNNA-WAKHQPDKKLKVFCQINTSGEENKHGAHPEH--AEALVS 85 (181)
Q Consensus 12 fIG-~LQsNKvk~l~~~~-~~~-~I~sVDs~~lA~~L~~~-~~~~~~~~~l~VliQVN~s~E~~K~Gv~p~~--~~~~~~ 85 (181)
++| ++...|++.+++.. .+. +...|||.+.++.|++. +.+.+. +++|+|+||+| -+|.|+.|++ +.
T Consensus 84 lla~~~~~~~~~~l~~l~~~~~~i~~~Vds~~~l~~l~~~~a~~~g~--~~~V~lkvDtG--m~R~Gv~~~~~~~~---- 155 (389)
T cd06817 84 LYGLPVPPSKLPRLAELSKKLGHLRVMVDNPEQLDFLEQFQPLKSGK--KWSVFIKVDCG--THRAGVPPESEDAK---- 155 (389)
T ss_pred EEECCCCHHHHHHHHHHHhhcCceEEEECCHHHHHHHHHHHhhccCC--ceEEEEEEcCC--CCcCCCCCChHHHH----
Confidence 356 45667888877621 123 88999999999999998 766676 89999999999 8899998743 55
Q ss_pred hhccCCCCCcccCCCCCCchhHHHHHHHHHhh-CCCceEeeeeecCCCCCCCCC------CccHHHHHHHHHHHHHHHhc
Q psy2326 86 HVINSCPNLEFTDKHGAHPEHAEALVSHVINS-CPNLEFTGLMTIGKYGYDTKH------GPNPDFLELAKCRKDVCKKL 158 (181)
Q Consensus 86 ~~~~~~~~~~~~~~~~~~~~~~~~l~~~i~~~-~p~L~l~GLMTi~~~~~d~~~------~~~~~F~~L~~l~~~l~~~~ 158 (181)
++++.| .+ +|+|+|.|+||+.++.|.... ..+..++.+..+++.|.+..
T Consensus 156 -----------------------~l~~~i-~~~~~~L~l~Gi~tH~g~~~~~~~~~e~~~~~~~~~~~~~~~~~~l~~~~ 211 (389)
T cd06817 156 -----------------------ELIQKL-EKASEAVELFGFYSHAGHSYSSRSAEDAKEVLREEIEAVLTAAKKLKSIQ 211 (389)
T ss_pred -----------------------HHHHHH-HhhCCCcEEEEEEEeCCcccCCCCHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 788888 56 899999999999998875321 11345677777777776424
Q ss_pred CCCCCCCEEeeCCcchHHHH
Q psy2326 159 NLNESNVELSMGMSSDLRER 178 (181)
Q Consensus 159 ~~~~~~~~LSMGMS~D~~~A 178 (181)
|+. ...+|.|.|+.+..+
T Consensus 212 g~~--~~~vs~GgTpt~~~~ 229 (389)
T cd06817 212 GDR--KLTLSVGATPTAHAA 229 (389)
T ss_pred CCC--CCEEEeCCCcchhhh
Confidence 654 689999999988763
No 20
>PRK13340 alanine racemase; Reviewed
Probab=99.17 E-value=3.4e-10 Score=102.30 Aligned_cols=125 Identities=12% Similarity=0.173 Sum_probs=92.7
Q ss_pred ccccHHhhhcCCCccEEEEeccHHHHHHHHHHHHhcCCCCCceEEEEEeCCCCCccCCCCccchhhhhhhhccCCCCCcc
Q psy2326 17 QSNKVPKVIKVPNLEYIETIHDTRLATQVNNAWAKHQPDKKLKVFCQINTSGEENKHGAHPEHAEALVSHVINSCPNLEF 96 (181)
Q Consensus 17 QsNKvk~l~~~~~~~~I~sVDs~~lA~~L~~~~~~~~~~~~l~VliQVN~s~E~~K~Gv~p~~~~~~~~~~~~~~~~~~~ 96 (181)
....++.+++ ..+..+|||...++.|++.+.+.++ +++|+|+||++| .+|.|+.|++.+++
T Consensus 122 ~~~el~~~~~---~~l~~~v~s~~~l~~l~~~a~~~~~--~~~V~LkVDt~G-m~R~G~~~~e~~~~------------- 182 (406)
T PRK13340 122 SPAEIEQALR---YDLEELIGDDEQAKLLAAIAKKNGK--PIDIHLALNSGG-MSRNGLDMSTARGK------------- 182 (406)
T ss_pred CHHHHHHHHH---cCCEEEECCHHHHHHHHHHHHHcCC--ceEEEEEECCCC-CCCcCCChhhhhHH-------------
Confidence 4455666665 3567889999999999999888776 899999999943 89999999776411
Q ss_pred cCCCCCCchhHHHHHHHHHhhCCCceEeeeeecCCCCCCCCCCccHHHHHHHHHHHHHHHhcCCCCCCCEEeeCCcchHH
Q psy2326 97 TDKHGAHPEHAEALVSHVINSCPNLEFTGLMTIGKYGYDTKHGPNPDFLELAKCRKDVCKKLNLNESNVELSMGMSSDLR 176 (181)
Q Consensus 97 ~~~~~~~~~~~~~l~~~i~~~~p~L~l~GLMTi~~~~~d~~~~~~~~F~~L~~l~~~l~~~~~~~~~~~~LSMGMS~D~~ 176 (181)
..+..+ .++++|++.|+||+.+..++ . .....|.++.++.+.+.++.++. ...+|||||+++.
T Consensus 183 ------------~~~~~l-~~~~~l~l~Gi~tH~a~ad~-~-~~~~q~~~f~~~~~~l~~~~g~~--~~~~~~h~anSa~ 245 (406)
T PRK13340 183 ------------WEALRI-ATLPSLGIVGIMTHFPNEDE-D-EVRWKLAQFKEQTAWLIGEAGLK--REKITLHVANSYA 245 (406)
T ss_pred ------------HHHHHH-HhCCCccEEEEEEECCCCCc-H-HHHHHHHHHHHHHHHHHHhcCCC--CCcCeEEecCCHH
Confidence 333355 56899999999999986433 2 34456777777777665444442 3568999999987
Q ss_pred H
Q psy2326 177 E 177 (181)
Q Consensus 177 ~ 177 (181)
.
T Consensus 246 ~ 246 (406)
T PRK13340 246 T 246 (406)
T ss_pred H
Confidence 5
No 21
>PRK00053 alr alanine racemase; Reviewed
Probab=99.14 E-value=3.9e-10 Score=99.92 Aligned_cols=115 Identities=17% Similarity=0.273 Sum_probs=85.1
Q ss_pred cccHHhhhcCCCccEEEEeccHHHHHHHHHHHHhcCCCCCceEEEEEeCCCCCccCCCCccchhhhhhhhccCCCCCccc
Q psy2326 18 SNKVPKVIKVPNLEYIETIHDTRLATQVNNAWAKHQPDKKLKVFCQINTSGEENKHGAHPEHAEALVSHVINSCPNLEFT 97 (181)
Q Consensus 18 sNKvk~l~~~~~~~~I~sVDs~~lA~~L~~~~~~~~~~~~l~VliQVN~s~E~~K~Gv~p~~~~~~~~~~~~~~~~~~~~ 97 (181)
..+++.+++ ..++.+|||.+.++.|+++ +.++ +++|+|+||+| .+|.|+.|+++.
T Consensus 87 ~~e~~~~~~---~~i~~~v~s~~~l~~l~~~--~~~~--~~~V~l~vdtG--~~R~Gi~~~e~~---------------- 141 (363)
T PRK00053 87 AEDLPLIIA---YNLTTAVHSLEQLEALEKA--ELGK--PLKVHLKIDTG--MHRLGVRPEEAE---------------- 141 (363)
T ss_pred HHHHHHHHH---cCCEEEECCHHHHHHHHHh--ccCC--CeEEEEEecCC--CCcCCCCHHHHH----------------
Confidence 346777765 4678999999999999995 4555 89999999999 689999998888
Q ss_pred CCCCCCchhHHHHHHHHHhhCCCceEeeeeecCCCCCCCCC-CccHHHHHHHHHHHHHHHhcCCCCCCCEEeeCCcch
Q psy2326 98 DKHGAHPEHAEALVSHVINSCPNLEFTGLMTIGKYGYDTKH-GPNPDFLELAKCRKDVCKKLNLNESNVELSMGMSSD 174 (181)
Q Consensus 98 ~~~~~~~~~~~~l~~~i~~~~p~L~l~GLMTi~~~~~d~~~-~~~~~F~~L~~l~~~l~~~~~~~~~~~~LSMGMS~D 174 (181)
++++.+ .++|+|+|.|+||+.+..++... .....++++.++.+.+.+ .+. ...|+|-|+-
T Consensus 142 -----------~~~~~i-~~~~~l~l~Gi~tH~~~~~~~~~~~~~~q~~~f~~~~~~l~~-~g~----~~~h~~nS~~ 202 (363)
T PRK00053 142 -----------AALERL-LACPNVRLEGIFSHFATADEPDNSYTEQQLNRFEAALAGLPG-KGK----PLRHLANSAA 202 (363)
T ss_pred -----------HHHHHH-HhCCCCceEEEEecCCCCCCCCChHHHHHHHHHHHHHHHHhh-cCC----ceEeccCCHH
Confidence 888888 57999999999999987654221 123445556566666653 232 3566666653
No 22
>cd06839 PLPDE_III_Btrk_like Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Btrk Decarboxylase. This subfamily is composed of Bacillus circulans BtrK decarboxylase and similar proteins. These proteins are fold type III PLP-dependent enzymes that contain an N-terminal PLP-binding TIM-barrel domain and a C-terminal beta-sandwich domain, similar to bacterial alanine racemases, eukaryotic ornithine decarboxylases and diaminopimelate decarboxylases. BtrK is presumed to function as a PLP-dependent decarboxylase involved in the biosynthesis of the aminoglycoside antibiotic butirosin. Homodimer formation and the presence of the PLP cofactor may be required for catalytic activity.
Probab=99.02 E-value=4.5e-09 Score=92.72 Aligned_cols=126 Identities=18% Similarity=0.214 Sum_probs=95.5
Q ss_pred eeeccc-ccccHHhhhcCCCcc-EEEEeccHHHHHHHHHHHHhcCCCCCceEEEEEeC-----------CCCCccCCCCc
Q psy2326 11 HFIGHL-QSNKVPKVIKVPNLE-YIETIHDTRLATQVNNAWAKHQPDKKLKVFCQINT-----------SGEENKHGAHP 77 (181)
Q Consensus 11 HfIG~L-QsNKvk~l~~~~~~~-~I~sVDs~~lA~~L~~~~~~~~~~~~l~VliQVN~-----------s~E~~K~Gv~p 77 (181)
.+.|+. +..-++.+++ .. ..-+|||.+-++.|++.+.+.+. +++|+|+||. +++.+|+|+++
T Consensus 79 ~~~~~~k~~~~l~~a~~---~g~~~i~vds~~el~~l~~~a~~~~~--~~~v~lRin~~~~~~~~g~~~~~~~sKfG~~~ 153 (382)
T cd06839 79 LFAGPGKSDAELRRAIE---AGIGTINVESLEELERIDALAEEHGV--VARVALRINPDFELKGSGMKMGGGPSQFGIDV 153 (382)
T ss_pred EEeCCCCCHHHHHHHHH---CCCCEEEECCHHHHHHHHHHHHhcCC--CCeEEEEECCCCCCCCCccccCCCCCCcCCCH
Confidence 456775 4444666554 24 56799999999999999887776 8999999995 45669999999
Q ss_pred cchhhhhhhhccCCCCCcccCCCCCCchhHHHHHHHHHhhCCCceEeeeeecCC-CCCCCCCCccHHHHHHHHHHHHHHH
Q psy2326 78 EHAEALVSHVINSCPNLEFTDKHGAHPEHAEALVSHVINSCPNLEFTGLMTIGK-YGYDTKHGPNPDFLELAKCRKDVCK 156 (181)
Q Consensus 78 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~i~~~~p~L~l~GLMTi~~-~~~d~~~~~~~~F~~L~~l~~~l~~ 156 (181)
+++. ++++.+ .++++|++.|||++.+ ...+ .+.....|+.+.++.+++.+
T Consensus 154 ~~~~---------------------------~~~~~~-~~~~~l~l~Glh~h~gs~~~~-~~~~~~~~~~~~~~~~~l~~ 204 (382)
T cd06839 154 EELP---------------------------AVLARI-AALPNLRFVGLHIYPGTQILD-ADALIEAFRQTLALALRLAE 204 (382)
T ss_pred HHHH---------------------------HHHHHH-HhCCCCcEEEEEEecCcCCCC-HHHHHHHHHHHHHHHHHHHH
Confidence 9888 788887 5689999999999844 3333 22235578888888888887
Q ss_pred hcCCCCCCCEEeeCCc
Q psy2326 157 KLNLNESNVELSMGMS 172 (181)
Q Consensus 157 ~~~~~~~~~~LSMGMS 172 (181)
+.|.+ ...|++|-+
T Consensus 205 ~~g~~--~~~idiGGG 218 (382)
T cd06839 205 ELGLP--LEFLDLGGG 218 (382)
T ss_pred hhCCC--CCEEEecCc
Confidence 66654 788999864
No 23
>cd06814 PLPDE_III_DSD_D-TA_like_3 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes Similar to D-Serine Dehydratase and D-Threonine Aldolase, Unknown Group 3. This subfamily is composed of uncharacterized bacterial proteins with similarity to eukaryotic D-serine dehydratases (DSD) and D-threonine aldolases (D-TA). DSD catalyzes the dehydration of D-serine to aminoacrylate, which is rapidly hydrolyzed to pyruvate and ammonia. D-TA reversibly catalyzes the aldol cleavage of D-threonine into glycine and acetaldehyde, and the synthesis of D-threonine from glycine and acetaldehyde. DSD and D-TA are fold type III PLP-dependent enzymes, similar to bacterial alanine racemase (AR), which contains an N-terminal PLP-binding TIM barrel domain and a C-terminal beta-sandwich domain. AR exists as homodimers with active sites that lie at the interface between the TIM barrel domain of one subunit and the beta-sandwich domain of the other subunit. Based on their similarity to AR, it is possible mem
Probab=99.00 E-value=3.4e-09 Score=95.63 Aligned_cols=113 Identities=12% Similarity=0.097 Sum_probs=87.1
Q ss_pred ccEEEEeccHHHHHHHHHHHHhcCCCCCceEEEEEeCCCCCccCCCCcc-chhhhhhhhccCCCCCcccCCCCCCchhHH
Q psy2326 30 LEYIETIHDTRLATQVNNAWAKHQPDKKLKVFCQINTSGEENKHGAHPE-HAEALVSHVINSCPNLEFTDKHGAHPEHAE 108 (181)
Q Consensus 30 ~~~I~sVDs~~lA~~L~~~~~~~~~~~~l~VliQVN~s~E~~K~Gv~p~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 108 (181)
..+.-+|||.+.++.|++.+.+.+. +++|+|+||+| -+|.|+.|+ ++.
T Consensus 108 ~~l~~~Vds~e~l~~l~~~a~~~g~--~l~V~lkVDtG--m~R~Gv~~~~~~~--------------------------- 156 (379)
T cd06814 108 RQLQWLIDTPERLAQYRALARSLGL--TLRINLELDVG--LHRGGFADPQTLP--------------------------- 156 (379)
T ss_pred cCEEEEECCHHHHHHHHHHHHHcCC--ceEEEEEeCCC--CCCCCCCCHHHHH---------------------------
Confidence 4578999999999999999988777 89999999999 889999886 466
Q ss_pred HHHHHHHhhCCCceEeeeeecCCCCCCCCCC---------ccHHHHHHHHHHHHHHHhcCCCCCCCEEeeCCcchHHH
Q psy2326 109 ALVSHVINSCPNLEFTGLMTIGKYGYDTKHG---------PNPDFLELAKCRKDVCKKLNLNESNVELSMGMSSDLRE 177 (181)
Q Consensus 109 ~l~~~i~~~~p~L~l~GLMTi~~~~~d~~~~---------~~~~F~~L~~l~~~l~~~~~~~~~~~~LSMGMS~D~~~ 177 (181)
++++.| .+.|+|++.|+||+.++.+..... ....++.+.+..+.+.. .|+. ...+|.|.|+.|..
T Consensus 157 ~l~~~i-~~~~~l~~~Gi~ty~gh~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~g~~--~~~vs~GgTpT~~~ 230 (379)
T cd06814 157 KALTAI-DAPPRLRFSGLMGYEPHVAKLPGLISPAKARAAAMARYQAFVALARAHLG-AHTQ--KLTLNTGGSPTYRL 230 (379)
T ss_pred HHHHHH-HhCCCceEEEEEEEccccccCCCcccHHHHHHHHHHHHHHHHHHHHHhhc-cCCC--ccEEecCCCcceEE
Confidence 889988 578999999999999987653211 11234444444444432 2554 68999999999764
No 24
>TIGR01048 lysA diaminopimelate decarboxylase. This family consists of diaminopimelate decarboxylase, an enzyme which catalyzes the conversion of diaminopimelic acid into lysine during the last step of lysine biosynthesis.
Probab=98.88 E-value=2e-08 Score=90.05 Aligned_cols=123 Identities=15% Similarity=0.102 Sum_probs=92.4
Q ss_pred eeccc-ccccHHhhhcCCCccE-EEEeccHHHHHHHHHHHHhcCCCCCceEEEEEeC------------CCCCccCCCCc
Q psy2326 12 FIGHL-QSNKVPKVIKVPNLEY-IETIHDTRLATQVNNAWAKHQPDKKLKVFCQINT------------SGEENKHGAHP 77 (181)
Q Consensus 12 fIG~L-QsNKvk~l~~~~~~~~-I~sVDs~~lA~~L~~~~~~~~~~~~l~VliQVN~------------s~E~~K~Gv~p 77 (181)
|-|+. ....++.+++ ..+ +-+|||.+.++.|++.+.+.+. +++|+|+||. +++.+|+|+++
T Consensus 99 ~~gp~k~~~~l~~a~~---~gi~~i~iDs~~el~~l~~~a~~~~~--~~~v~lRIn~~~~~~~~~~~~~g~~~srfGi~~ 173 (417)
T TIGR01048 99 FNGNGKSRAELERALE---LGIRCINVDSESELELLNEIAPELGK--KARVSLRVNPGVDAKTHPYISTGLEDSKFGIDV 173 (417)
T ss_pred EeCCCCCHHHHHHHHH---cCCCEEEeCCHHHHHHHHHHHHhcCC--CceEEEEECCCCCCCCCCCeecCCCCCCCCCCH
Confidence 44663 4455666665 244 3699999999999999887776 8999999995 35669999999
Q ss_pred cchhhhhhhhccCCCCCcccCCCCCCchhHHHHHHHHHhhCCCceEeeeeecC-CCCCCCCCCccHHHHHHHHHHHHHHH
Q psy2326 78 EHAEALVSHVINSCPNLEFTDKHGAHPEHAEALVSHVINSCPNLEFTGLMTIG-KYGYDTKHGPNPDFLELAKCRKDVCK 156 (181)
Q Consensus 78 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~i~~~~p~L~l~GLMTi~-~~~~d~~~~~~~~F~~L~~l~~~l~~ 156 (181)
+++. ++++.+ .++++|++.|++++- +...+ .+.....|..+.++.+.+++
T Consensus 174 ~~~~---------------------------~~~~~~-~~~~~l~l~Glh~H~gs~~~d-~~~~~~~~~~~~~~~~~l~~ 224 (417)
T TIGR01048 174 EEAL---------------------------EAYLYA-LQLPHLELVGIHCHIGSQITD-LSPFVEAAEKVVDLVEELKA 224 (417)
T ss_pred HHHH---------------------------HHHHHH-HhCCCCCEEEEEEeCCCCCCC-hHHHHHHHHHHHHHHHHHHh
Confidence 8887 788887 578999999998854 43333 23346678888888888874
Q ss_pred hcCCCCCCCEEeeCC
Q psy2326 157 KLNLNESNVELSMGM 171 (181)
Q Consensus 157 ~~~~~~~~~~LSMGM 171 (181)
.+.. +..||||-
T Consensus 225 -~g~~--l~~idiGG 236 (417)
T TIGR01048 225 -EGID--LEFLDLGG 236 (417)
T ss_pred -cCCC--ccEEEeCC
Confidence 4543 68999984
No 25
>cd06828 PLPDE_III_DapDC Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase. Diaminopimelate decarboxylase (DapDC, EC 4.1.1.20) participates in the last step of lysine biosynthesis. It converts meso-2,6-diaminoheptanedioate to L-lysine. It is a fold type III PLP-dependent enzyme that contains an N-terminal PLP-binding TIM-barrel domain and a C-terminal beta-sandwich domain, similar to bacterial alanine racemases. DapDC exists as homodimers with active sites that lie at the interface between the TIM barrel domain of one subunit and the beta-sandwich domain of the other subunit. Homodimer formation and the presence of the PLP cofactor are required for catalytic activity.
Probab=98.88 E-value=3.4e-08 Score=86.75 Aligned_cols=125 Identities=14% Similarity=0.099 Sum_probs=93.9
Q ss_pred eeeccc-ccccHHhhhcCCCccEEEEeccHHHHHHHHHHHHhcCCCCCceEEEEEeC------------CCCCccCCCCc
Q psy2326 11 HFIGHL-QSNKVPKVIKVPNLEYIETIHDTRLATQVNNAWAKHQPDKKLKVFCQINT------------SGEENKHGAHP 77 (181)
Q Consensus 11 HfIG~L-QsNKvk~l~~~~~~~~I~sVDs~~lA~~L~~~~~~~~~~~~l~VliQVN~------------s~E~~K~Gv~p 77 (181)
.|-|+. ....++.+++ +--.+-+|||.+-++.|++.+.+.++ +++|+|+||. +++.+|+|+++
T Consensus 76 ~~~~p~k~~~~l~~a~~--~g~~~~~ids~~el~~l~~~a~~~~~--~~~v~lRv~~~~~~~~~~~~~~g~~~srfGi~~ 151 (373)
T cd06828 76 VFTGNGKSDEELELALE--LGILRINVDSLSELERLGEIAPELGK--GAPVALRVNPGVDAGTHPYISTGGKDSKFGIPL 151 (373)
T ss_pred EEeCCCCCHHHHHHHHH--cCCeEEEECCHHHHHHHHHHHHhcCC--CCeEEEEECCCCCCCCCCCeecCCCCCCCCCCH
Confidence 455665 4455777665 22278899999999999999988776 8999998874 55678999999
Q ss_pred cchhhhhhhhccCCCCCcccCCCCCCchhHHHHHHHHHhhCCCceEeeeeecCC-CCCCCCCCccHHHHHHHHHHHHHHH
Q psy2326 78 EHAEALVSHVINSCPNLEFTDKHGAHPEHAEALVSHVINSCPNLEFTGLMTIGK-YGYDTKHGPNPDFLELAKCRKDVCK 156 (181)
Q Consensus 78 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~i~~~~p~L~l~GLMTi~~-~~~d~~~~~~~~F~~L~~l~~~l~~ 156 (181)
+++. ++++.+ .++++|++.|+|++-+ ...+ .+..+..++++.++.+++++
T Consensus 152 ~e~~---------------------------~~~~~~-~~~~~l~l~Gi~~H~gs~~~~-~~~~~~~~~~~~~~~~~l~~ 202 (373)
T cd06828 152 EQAL---------------------------EAYRRA-KELPGLKLVGLHCHIGSQILD-LEPFVEAAEKLLDLAAELRE 202 (373)
T ss_pred HHHH---------------------------HHHHHH-HhCCCCcEEEEEEecCCCCCC-HHHHHHHHHHHHHHHHHHHh
Confidence 9888 888887 5789999999999754 3323 22346677888888888873
Q ss_pred hcCCCCCCCEEeeCC
Q psy2326 157 KLNLNESNVELSMGM 171 (181)
Q Consensus 157 ~~~~~~~~~~LSMGM 171 (181)
.+.+ +..|++|-
T Consensus 203 -~g~~--~~~idiGG 214 (373)
T cd06828 203 -LGID--LEFLDLGG 214 (373)
T ss_pred -cCCC--CCEEEeCC
Confidence 4543 67888874
No 26
>cd06812 PLPDE_III_DSD_D-TA_like_1 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes Similar to D-Serine Dehydratase and D-Threonine Aldolase, Unknown Group 1. This subfamily is composed of uncharacterized bacterial proteins with similarity to eukaryotic D-serine dehydratases (DSD) and D-threonine aldolases (D-TA). DSD catalyzes the dehydration of D-serine to aminoacrylate, which is rapidly hydrolyzed to pyruvate and ammonia. D-TA reversibly catalyzes the aldol cleavage of D-threonine into glycine and acetaldehyde, and the synthesis of D-threonine from glycine and acetaldehyde. DSD and D-TA are fold type III PLP-dependent enzymes, similar to bacterial alanine racemase (AR), which contains an N-terminal PLP-binding TIM barrel domain and a C-terminal beta-sandwich domain. AR exists as homodimers with active sites that lie at the interface between the TIM barrel domain of one subunit and the beta-sandwich domain of the other subunit. Based on their similarity to AR, it is possible mem
Probab=98.81 E-value=7.4e-08 Score=85.22 Aligned_cols=113 Identities=12% Similarity=0.178 Sum_probs=84.2
Q ss_pred ccEEEEeccHHHHHHHHHHHHhcCCCCCceEEEEEeCCCCCccCCCCccc--hhhhhhhhccCCCCCcccCCCCCCchhH
Q psy2326 30 LEYIETIHDTRLATQVNNAWAKHQPDKKLKVFCQINTSGEENKHGAHPEH--AEALVSHVINSCPNLEFTDKHGAHPEHA 107 (181)
Q Consensus 30 ~~~I~sVDs~~lA~~L~~~~~~~~~~~~l~VliQVN~s~E~~K~Gv~p~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 107 (181)
..+.-.|||..-++.|++.+.+.+. +++|+|.||++ -+|+|+.|++ +.
T Consensus 99 ~~~~~~vds~~~l~~l~~~a~~~~~--~~~V~l~vd~G--~~R~Gv~~~~~~~~-------------------------- 148 (374)
T cd06812 99 VNLTILLDSVEQAQAVAAFSRQHGV--RFPVLIEIDCD--GHRGGIAPDSDALL-------------------------- 148 (374)
T ss_pred CceEEEECCHHHHHHHHHHHHHcCC--ceEEEEEeCCC--CCcCCCCCCcHHHH--------------------------
Confidence 3467899999999999999988887 89999999998 6899998863 34
Q ss_pred HHHHHHHHhhCCCceEeeeeecCCCCCCCCC-Cc-----cHHHHHHHHHHHHHHHhcCCCCCCCEEeeCCcchHHHH
Q psy2326 108 EALVSHVINSCPNLEFTGLMTIGKYGYDTKH-GP-----NPDFLELAKCRKDVCKKLNLNESNVELSMGMSSDLRER 178 (181)
Q Consensus 108 ~~l~~~i~~~~p~L~l~GLMTi~~~~~d~~~-~~-----~~~F~~L~~l~~~l~~~~~~~~~~~~LSMGMS~D~~~A 178 (181)
++++.+ . .++|+|.|+|++.+..+...+ .. +..++.+.++.+.+++. |+. ...+|+|-|+.+..+
T Consensus 149 -~l~~~i-~-~~~l~l~Gi~~H~G~~~~~~d~~~~~~~~~~~~~~~~~~~~~l~~~-g~~--~~~v~~Ggt~~~~~~ 219 (374)
T cd06812 149 -EIARIL-H-DGGAELRGVLTHAGESYACRTPEALAAAAEQERAAAVRAAERLRAA-GLP--CPVVSVGSTPTAHFA 219 (374)
T ss_pred -HHHHHH-h-cCCceEEEEEccCCcccCCCCHHHHHHHHHHHHHHHHHHHHHHHhC-CCC--CCEEeecCChhhhhh
Confidence 777776 3 489999999999877553111 11 11223366677777653 554 689999998877654
No 27
>COG3616 Predicted amino acid aldolase or racemase [Amino acid transport and metabolism]
Probab=98.78 E-value=8.1e-08 Score=87.40 Aligned_cols=122 Identities=13% Similarity=0.170 Sum_probs=89.5
Q ss_pred HHhhhcCCCcc-EEEEeccHHHHHHHHHHHHhcCCCCCceEEEEEeCCCCCccCCCCccchhhhhhhhccCCCCCcccCC
Q psy2326 21 VPKVIKVPNLE-YIETIHDTRLATQVNNAWAKHQPDKKLKVFCQINTSGEENKHGAHPEHAEALVSHVINSCPNLEFTDK 99 (181)
Q Consensus 21 vk~l~~~~~~~-~I~sVDs~~lA~~L~~~~~~~~~~~~l~VliQVN~s~E~~K~Gv~p~~~~~~~~~~~~~~~~~~~~~~ 99 (181)
+..+.+ ... +.-.+||.+-++.|...+.+.++ +++|+|||+++ ..|+|+...+..
T Consensus 104 L~~l~~--~~~~~~~~iDs~~~~~~l~~~~~~~~~--pl~v~iE~D~G--~~R~Gv~t~~~~------------------ 159 (368)
T COG3616 104 LAELLA--DPPRISVLIDSVEQLDALAALARDAGK--PLRVLIEIDSG--LHRSGVRTPEVA------------------ 159 (368)
T ss_pred HHHhcC--CCCceEEEeCCHHHHHHHHHHHHhcCC--CeeEEEEeCCC--CCccCcCChHHH------------------
Confidence 555555 345 77889999999999999998888 99999999998 779999764432
Q ss_pred CCCCchhHHHHHHHHHhhCCCceEeeeeecCCCCCCCCCCccHHHHHHHHHHHHHHHhcCCCCCCCEEeeCCcchHHHHh
Q psy2326 100 HGAHPEHAEALVSHVINSCPNLEFTGLMTIGKYGYDTKHGPNPDFLELAKCRKDVCKKLNLNESNVELSMGMSSDLRERE 179 (181)
Q Consensus 100 ~~~~~~~~~~l~~~i~~~~p~L~l~GLMTi~~~~~d~~~~~~~~F~~L~~l~~~l~~~~~~~~~~~~LSMGMS~D~~~AI 179 (181)
+.|++.+ ...+.|+|.|+||++++.+.... ....+.. ......+. ..+.. ...+|-|-|++++.++
T Consensus 160 --------~~La~~~-~~~~~l~~~Gv~~y~gh~~~~~~-~~~~~~~-~~a~~~~~-~~g~~--~~~vt~ggtp~~~~~~ 225 (368)
T COG3616 160 --------EALAAEI-AAAPGLRLAGVMTYPGHSYGPGS-EVAAAER-VHAAALLG-AVGRA--APVLTSGGTPTAELVA 225 (368)
T ss_pred --------HHHHHhh-hhccceEEeeeecccccccCCcc-hhhhhhh-hhHHHHhc-ccCCc--cceeecCCCCchhhhc
Confidence 1778877 67899999999999999876321 1111122 22233332 23443 6899999999999875
Q ss_pred c
Q psy2326 180 S 180 (181)
Q Consensus 180 ~ 180 (181)
.
T Consensus 226 ~ 226 (368)
T COG3616 226 G 226 (368)
T ss_pred c
Confidence 4
No 28
>cd06843 PLPDE_III_PvsE_like Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme PvsE. This subfamily is composed of PvsE from Vibrio parahaemolyticus and similar proteins. PvsE is a vibrioferrin biosynthesis protein which is homologous to eukaryotic ornithine decarboxylase (ODC) and diaminopimelate decarboxylase (DapDC). ODC and DapDC are fold type III PLP-dependent enzymes that contain an N-terminal PLP-binding TIM-barrel domain and a C-terminal beta-sandwich domain, similar to bacterial alanine racemases. It has been suggested that PvsE may be involved in the biosynthesis of the polycarboxylate siderophore vibrioferrin. It may catalyze the decarboxylation of serine to yield ethanolamine. PvsE may require homodimer formation and the presence of the PLP cofactor for activity.
Probab=98.69 E-value=2.6e-07 Score=82.15 Aligned_cols=127 Identities=11% Similarity=0.117 Sum_probs=86.6
Q ss_pred eeeeccccccc-HHhhhcCCCccEEEEeccHHHHHHHHHHHHhcCCCCCceEEEEEeCC------------CCCccCCCC
Q psy2326 10 WHFIGHLQSNK-VPKVIKVPNLEYIETIHDTRLATQVNNAWAKHQPDKKLKVFCQINTS------------GEENKHGAH 76 (181)
Q Consensus 10 WHfIG~LQsNK-vk~l~~~~~~~~I~sVDs~~lA~~L~~~~~~~~~~~~l~VliQVN~s------------~E~~K~Gv~ 76 (181)
=.|-|+..+.+ ++.+++. ++..| +|||..-++.|++.+.+.++ +++|++.||++ ++.+|+|++
T Consensus 72 I~~~gp~k~~~~l~~a~~~-gi~~i-~vds~~el~~l~~~a~~~~~--~~~v~lRi~~~~~~~~~~~~~~~~~~srfG~~ 147 (377)
T cd06843 72 LIFGGPGKTDSELAQALAQ-GVERI-HVESELELRRLNAVARRAGR--TAPVLLRVNLALPDLPSSTLTMGGQPTPFGID 147 (377)
T ss_pred EEEeCCCCCHHHHHHHHHc-CCCEE-EeCCHHHHHHHHHHHHHcCC--CceEEEEECCCCCCCCCcceecCCCCCCCCcC
Confidence 34667766655 4555542 33333 69999999999998887776 89999999985 445799999
Q ss_pred ccchhhhhhhhccCCCCCcccCCCCCCchhHHHHHHHHHhhCCCceEeeeeecCCCCCCCCCCccHHHHHHHHHHHHHHH
Q psy2326 77 PEHAEALVSHVINSCPNLEFTDKHGAHPEHAEALVSHVINSCPNLEFTGLMTIGKYGYDTKHGPNPDFLELAKCRKDVCK 156 (181)
Q Consensus 77 p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~i~~~~p~L~l~GLMTi~~~~~d~~~~~~~~F~~L~~l~~~l~~ 156 (181)
++++. ++++.+ .++++|++.|++++-+......+.....++.+.++..++.+
T Consensus 148 ~~~~~---------------------------~~~~~~-~~~~~l~~~Glh~H~gs~~~~~~~~~~~~~~~~~~~~~l~~ 199 (377)
T cd06843 148 EADLP---------------------------DALELL-RDLPNIRLRGFHFHLMSHNLDAAAHLALVKAYLETARQWAA 199 (377)
T ss_pred HHHHH---------------------------HHHHHH-HhCCCccEEEEEEEcCcCcCChHHHHHHHHHHHHHHHHHHH
Confidence 98887 788877 56899999999999874321111122334444444555555
Q ss_pred hcCCCCCCCEEeeC
Q psy2326 157 KLNLNESNVELSMG 170 (181)
Q Consensus 157 ~~~~~~~~~~LSMG 170 (181)
++|.+ +..|.+|
T Consensus 200 ~~g~~--~~~idiG 211 (377)
T cd06843 200 EHGLD--LDVVNVG 211 (377)
T ss_pred HhCCC--CcEEEec
Confidence 55654 4555554
No 29
>PLN02537 diaminopimelate decarboxylase
Probab=98.65 E-value=3.6e-07 Score=82.32 Aligned_cols=125 Identities=13% Similarity=0.097 Sum_probs=88.1
Q ss_pred eeecccccccHHhhhcCCCccEEEEeccHHHHHHHHHHHHhcCCCCCceEEEEEeC------------CCCCccCCCCcc
Q psy2326 11 HFIGHLQSNKVPKVIKVPNLEYIETIHDTRLATQVNNAWAKHQPDKKLKVFCQINT------------SGEENKHGAHPE 78 (181)
Q Consensus 11 HfIG~LQsNKvk~l~~~~~~~~I~sVDs~~lA~~L~~~~~~~~~~~~l~VliQVN~------------s~E~~K~Gv~p~ 78 (181)
-|.|+..+..--..+. ...+.-+|||..-++.|.+.+.+.+. +++|+|.||. +...+|+|++++
T Consensus 91 i~~g~~k~~~~l~~a~--~~gv~i~ids~~el~~l~~~a~~~~~--~~~v~lRvnp~~~~~~~~~i~tG~~~sRfGi~~~ 166 (410)
T PLN02537 91 IFNGNGKLLEDLVLAA--QEGVFVNVDSEFDLENIVEAARIAGK--KVNVLLRINPDVDPQVHPYVATGNKNSKFGIRNE 166 (410)
T ss_pred EEECCCCCHHHHHHHH--HCCCEEEECCHHHHHHHHHHHHhcCC--CceEEEEECCCCCCCCCCccccCCCCCCCCCCHH
Confidence 5567666655333332 23445799999999999999888776 8999999994 445699999998
Q ss_pred chhhhhhhhccCCCCCcccCCCCCCchhHHHHHHHHHhhCC-CceEeeeeecCCCCCCCCCCccHHHHHHHHHHHHHHHh
Q psy2326 79 HAEALVSHVINSCPNLEFTDKHGAHPEHAEALVSHVINSCP-NLEFTGLMTIGKYGYDTKHGPNPDFLELAKCRKDVCKK 157 (181)
Q Consensus 79 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~i~~~~p-~L~l~GLMTi~~~~~d~~~~~~~~F~~L~~l~~~l~~~ 157 (181)
++. ++++.+ .+.| +|++.|++++-+......+.....++.+.++.+.+++.
T Consensus 167 ~~~---------------------------~~~~~~-~~~~~~l~l~Glh~H~gs~~~~~~~~~~~~~~~~~~~~~~~~~ 218 (410)
T PLN02537 167 KLQ---------------------------WFLDAV-KAHPNELKLVGAHCHLGSTITKVDIFRDAAVLMVNYVDEIRAQ 218 (410)
T ss_pred HHH---------------------------HHHHHH-HhCCCCCcEEEEEeccCCCCCchHHHHHHHHHHHHHHHHHHHc
Confidence 887 788877 5688 89999999998754221222234455677777777653
Q ss_pred cCCCCCCCEEeeC
Q psy2326 158 LNLNESNVELSMG 170 (181)
Q Consensus 158 ~~~~~~~~~LSMG 170 (181)
|.. +..|++|
T Consensus 219 -g~~--~~~idiG 228 (410)
T PLN02537 219 -GFE--LSYLNIG 228 (410)
T ss_pred -CCC--ccEEEcC
Confidence 543 4566655
No 30
>cd06842 PLPDE_III_Y4yA_like Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Y4yA. This subfamily is composed of the hypothetical Rhizobium sp. protein Y4yA and similar uncharacterized bacterial proteins. These proteins are homologous to eukaryotic ornithine decarboxylase (ODC) and diaminopimelate decarboxylase (DapDC). ODC and DapDC are fold type III PLP-dependent enzymes that contain an N-terminal PLP-binding TIM-barrel domain and a C-terminal beta-sandwich domain, similar to bacterial alanine racemases. ODC participates in the formation of putrescine by catalyzing the decarboxylation of ornithine, the first step in polyamine biosynthesis. DapDC participates in the last step of lysine biosynthesis, the conversion of meso-2,6-diaminoheptanedioate to L-lysine. Proteins in this subfamily may function as PLP-dependent decarboxylases.
Probab=98.57 E-value=9.3e-07 Score=80.49 Aligned_cols=123 Identities=7% Similarity=-0.003 Sum_probs=93.2
Q ss_pred eeeccccccc-HHhhhcCCCccEEEEeccHHHHHHHHHHHHh-cCCCCCceEEEEEeCCC--CCccCCCCccchhhhhhh
Q psy2326 11 HFIGHLQSNK-VPKVIKVPNLEYIETIHDTRLATQVNNAWAK-HQPDKKLKVFCQINTSG--EENKHGAHPEHAEALVSH 86 (181)
Q Consensus 11 HfIG~LQsNK-vk~l~~~~~~~~I~sVDs~~lA~~L~~~~~~-~~~~~~l~VliQVN~s~--E~~K~Gv~p~~~~~~~~~ 86 (181)
+|-|+..+.+ ++.+++ ..+.-.|||..-++.|.+.+.+ .+. +++|+|.||++. ..+|+|++++++.
T Consensus 85 ~~~g~~k~~~~i~~a~~---~gi~i~vDs~~el~~l~~~a~~~~~~--~~~v~lRIn~~~~~~~sRfGi~~~e~~----- 154 (423)
T cd06842 85 VATGPAKTDEFLWLAVR---HGATIAVDSLDELDRLLALARGYTTG--PARVLLRLSPFPASLPSRFGMPAAEVR----- 154 (423)
T ss_pred EEECCCCCHHHHHHHHh---CCCEEEECCHHHHHHHHHHHHhcCCC--CCEEEEEEeCCCCCCCCCCCCCHHHHH-----
Confidence 6778888877 555544 3456899999999999998877 666 899999999964 4589999988887
Q ss_pred hccCCCCCcccCCCCCCchhHHHHHHHHHhhC-CCceEeeeeecCCCCCCCCCCccHHHHHHHHHHHHHHHhcCCCCCCC
Q psy2326 87 VINSCPNLEFTDKHGAHPEHAEALVSHVINSC-PNLEFTGLMTIGKYGYDTKHGPNPDFLELAKCRKDVCKKLNLNESNV 165 (181)
Q Consensus 87 ~~~~~~~~~~~~~~~~~~~~~~~l~~~i~~~~-p~L~l~GLMTi~~~~~d~~~~~~~~F~~L~~l~~~l~~~~~~~~~~~ 165 (181)
++++.+ .++ |+|++.||+++-+.. + .+.....++.+.++.+.+.+ .+.+ +.
T Consensus 155 ----------------------~~~~~i-~~~~~~l~l~Glh~H~gs~-~-~~~~~~~~~~~~~~~~~l~~-~g~~--~~ 206 (423)
T cd06842 155 ----------------------TALERL-AQLRERVRLVGFHFHLDGY-S-AAQRVAALQECLPLIDRARA-LGLA--PR 206 (423)
T ss_pred ----------------------HHHHHH-HhcCCCCeEEEEEEEcCCC-C-HHHHHHHHHHHHHHHHHHHh-cCCC--CC
Confidence 888887 456 899999999998764 3 22234556777777777764 4543 67
Q ss_pred EEeeCC
Q psy2326 166 ELSMGM 171 (181)
Q Consensus 166 ~LSMGM 171 (181)
.|++|-
T Consensus 207 ~idiGG 212 (423)
T cd06842 207 FIDIGG 212 (423)
T ss_pred EEEeCC
Confidence 888764
No 31
>cd06826 PLPDE_III_AR2 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme, Alanine Racemase 2. This subfamily is composed of bacterial alanine racemases (EC 5.1.1.1) with similarity to Yersinia pestis and Vibrio cholerae alanine racemase (AR) 2. ARs catalyze the interconversion between L- and D-alanine, an essential component of the peptidoglycan layer of bacterial cell walls. These proteins are similar to other bacterial ARs and are fold type III PLP-dependent enzymes containing contains an N-terminal PLP-binding TIM-barrel domain and a C-terminal beta-sandwich domain. They exist as homodimers with active sites that lie at the interface between the TIM barrel domain of one subunit and the beta-sandwich domain of the other subunit. Homodimer formation and the presence of the PLP cofactor are required for catalytic activity.
Probab=98.44 E-value=4.2e-06 Score=74.79 Aligned_cols=124 Identities=15% Similarity=0.192 Sum_probs=83.0
Q ss_pred cccccccHHhhhcCCCccEEEEeccHHHHHHHHHHHHhcCCCCCceEEEEEeC-CCCCccCCCCccchhhhhhhhccCCC
Q psy2326 14 GHLQSNKVPKVIKVPNLEYIETIHDTRLATQVNNAWAKHQPDKKLKVFCQINT-SGEENKHGAHPEHAEALVSHVINSCP 92 (181)
Q Consensus 14 G~LQsNKvk~l~~~~~~~~I~sVDs~~lA~~L~~~~~~~~~~~~l~VliQVN~-s~E~~K~Gv~p~~~~~~~~~~~~~~~ 92 (181)
|......++.+++ ..+..+|+|.+.++.|++.+.+.++ +++|.|.||+ | -+|.|+.|++.+..
T Consensus 80 ~~~~~~e~~~~i~---~~i~~~v~s~~~l~~l~~~a~~~~~--~~~v~LkvDt~G--m~R~Gi~~~~~~~~--------- 143 (365)
T cd06826 80 RTATPSEIEDALA---YNIEELIGSLDQAEQIDSLAKRHGK--TLPVHLALNSGG--MSRNGLELSTAQGK--------- 143 (365)
T ss_pred eCCCHHHHHHHHH---cCCEEEECCHHHHHHHHHHHHHcCC--ceEEEEEECCCC--CCCCCCCcchhhHH---------
Confidence 4445566777776 3567999999999999999988876 8999999999 7 69999998653211
Q ss_pred CCcccCCCCCCchhHHHHHHHHHhhCCCceEeeeeecCCCCCCCCCCccHHHHHHHHHHHHHHHhcCCCCCCCEEeeCCc
Q psy2326 93 NLEFTDKHGAHPEHAEALVSHVINSCPNLEFTGLMTIGKYGYDTKHGPNPDFLELAKCRKDVCKKLNLNESNVELSMGMS 172 (181)
Q Consensus 93 ~~~~~~~~~~~~~~~~~l~~~i~~~~p~L~l~GLMTi~~~~~d~~~~~~~~F~~L~~l~~~l~~~~~~~~~~~~LSMGMS 172 (181)
+++..+ .++|+|++.|+||+-+..++ . .....+.+..+..+.+.+..++.......+.+-|
T Consensus 144 ----------------~~~~~~-~~~~~l~l~Gi~tH~a~ad~-~-~~~~q~~~f~~~~~~~~~~~g~~~~~~~~h~~nS 204 (365)
T cd06826 144 ----------------EDAVAI-ATLPNLKIVGIMTHFPVEDE-D-DVRAKLARFNEDTAWLISNAKLKREKITLHAANS 204 (365)
T ss_pred ----------------HHHHHH-HHCCCCcEEEEEEeCCCCCc-h-HHHHHHHHHHHHHHHHHHhcCCCCCcCeEEeeCC
Confidence 566666 56899999999999876432 1 2233344444444444332333211224444444
No 32
>cd06813 PLPDE_III_DSD_D-TA_like_2 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes Similar to D-Serine Dehydratase and D-Threonine Aldolase, Unknown Group 2. This subfamily is composed of uncharacterized bacterial proteins with similarity to eukaryotic D-serine dehydratases (DSD) and D-threonine aldolases (D-TA). DSD catalyzes the dehydration of D-serine to aminoacrylate, which is rapidly hydrolyzed to pyruvate and ammonia. D-TA reversibly catalyzes the aldol cleavage of D-threonine into glycine and acetaldehyde, and the synthesis of D-threonine from glycine and acetaldehyde. DSD and D-TA are fold type III PLP-dependent enzymes, similar to bacterial alanine racemase (AR), which contains an N-terminal PLP-binding TIM barrel domain and a C-terminal beta-sandwich domain. AR exists as homodimers with active sites that lie at the interface between the TIM barrel domain of one subunit and the beta-sandwich domain of the other subunit. Based on their similarity to AR, it is possible mem
Probab=98.40 E-value=3.8e-06 Score=75.74 Aligned_cols=83 Identities=19% Similarity=0.237 Sum_probs=63.0
Q ss_pred ccHHhhhcCC--CccEEEEeccHHHHHHHHHHHHhcCCCCCceEEEEEeCCCCCccCC---------CC-ccchhhhhhh
Q psy2326 19 NKVPKVIKVP--NLEYIETIHDTRLATQVNNAWAKHQPDKKLKVFCQINTSGEENKHG---------AH-PEHAEALVSH 86 (181)
Q Consensus 19 NKvk~l~~~~--~~~~I~sVDs~~lA~~L~~~~~~~~~~~~l~VliQVN~s~E~~K~G---------v~-p~~~~~~~~~ 86 (181)
.++..++..+ ...+...|||.+.++.|++.+.+.+. +++|+|+||+| -++.| +. ++++.
T Consensus 91 ~~l~~~~~~~~~~~~i~~~Vds~~~l~~l~~~a~~~~~--~~~V~l~IDtG--m~R~G~~~G~~Rs~~~~~~~~~----- 161 (388)
T cd06813 91 AALRELAADPKLGATITLMVDSVEHLDLLDAVAAPMRV--EVRVCIDIDAS--LRFGGLHFGVRRSPLHTPAQAL----- 161 (388)
T ss_pred HHHHHHHhhhccCCeEEEEEcCHHHHHHHHHHHHhcCC--ceEEEEEECCC--ccccccccCcCCCCCCCHHHHH-----
Confidence 4456665411 12567899999999999999887776 89999999997 34444 43 55555
Q ss_pred hccCCCCCcccCCCCCCchhHHHHHHHHHhhCCCceEeeeeecCCCC
Q psy2326 87 VINSCPNLEFTDKHGAHPEHAEALVSHVINSCPNLEFTGLMTIGKYG 133 (181)
Q Consensus 87 ~~~~~~~~~~~~~~~~~~~~~~~l~~~i~~~~p~L~l~GLMTi~~~~ 133 (181)
++++.| .+.|+|+|.|+||+.++.
T Consensus 162 ----------------------~l~~~i-~~~~~l~l~Gi~th~g~~ 185 (388)
T cd06813 162 ----------------------ALAKAI-AARPGLRLVGLMGYEAQI 185 (388)
T ss_pred ----------------------HHHHHH-hcCCCcEEEEEEEEchhh
Confidence 888887 578999999999997763
No 33
>cd06825 PLPDE_III_VanT Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, VanT and similar proteins. This subfamily is composed of Enterococcus gallinarum VanT and similar proteins. VanT is a membrane-bound serine racemase (EC 5.1.1.18) that is essential for vancomycin resistance in Enterococcus gallinarum. It converts L-serine into its D-enantiomer (D-serine) for peptidoglycan synthesis. The C-terminal region of this protein contains a PLP-binding TIM-barrel domain followed by beta-sandwich domain, which is homologous to the fold type III PLP-dependent enzyme, bacterial alanine racemase (AR). AR exists as homodimers with active sites that lie at the interface between the TIM barrel domain of one subunit and the beta-sandwich domain of the other subunit. On the basis of this similarity, it has been suggested that dimer formation of VanT is required for its catalytic activity, and that it catalyzes the racemization of serine in a mechanistically similar manner to that of alanine by
Probab=98.39 E-value=4.1e-06 Score=75.19 Aligned_cols=118 Identities=13% Similarity=0.161 Sum_probs=82.1
Q ss_pred cccccccHHhhhcCCCccEEEEeccHHHHHHHHHHHHhcCCCCCceEEEEEeCCCCCccCCCCccchhhhhhhhccCCCC
Q psy2326 14 GHLQSNKVPKVIKVPNLEYIETIHDTRLATQVNNAWAKHQPDKKLKVFCQINTSGEENKHGAHPEHAEALVSHVINSCPN 93 (181)
Q Consensus 14 G~LQsNKvk~l~~~~~~~~I~sVDs~~lA~~L~~~~~~~~~~~~l~VliQVN~s~E~~K~Gv~p~~~~~~~~~~~~~~~~ 93 (181)
|......+..+++ ..++-+|+|.+.++.|++.+ + +++|.|+|||| -+|.|+.|+++
T Consensus 80 ~~~~~~~~~~~~~---~~l~~~i~~~~~l~~l~~~~----~--~~~vhlkvDtG--m~R~G~~~~~~------------- 135 (368)
T cd06825 80 GYTPPVRAKELKK---YSLTQTLISEAYAEELSKYA----V--NIKVHLKVDTG--MHRLGESPEDI------------- 135 (368)
T ss_pred cCCCHHHHHHHHH---cCCEEEECCHHHHHHHHhcC----C--CceEEEEeeCC--CCCCCCCHHHH-------------
Confidence 5444456777765 46889999999999998855 3 78999999999 88999999553
Q ss_pred CcccCCCCCCchhHHHHHHHHHhhCCCceEeeeeecCCCCCCCCC----CccHHHHHHHHHHHHHHHhcCCCCCCCEEee
Q psy2326 94 LEFTDKHGAHPEHAEALVSHVINSCPNLEFTGLMTIGKYGYDTKH----GPNPDFLELAKCRKDVCKKLNLNESNVELSM 169 (181)
Q Consensus 94 ~~~~~~~~~~~~~~~~l~~~i~~~~p~L~l~GLMTi~~~~~d~~~----~~~~~F~~L~~l~~~l~~~~~~~~~~~~LSM 169 (181)
+++..+ .++|+|++.|+||+-+..++..+ ..+..++...++.+.+.+. ++. ....|+
T Consensus 136 ---------------~~~~~~-~~~~~l~~~Gi~tH~a~ad~~~~~~~~~~~~Q~~~f~~~~~~l~~~-g~~--~~~~h~ 196 (368)
T cd06825 136 ---------------DSILAI-YRLKNLKVSGIFSHLCVSDSLDEDDIAFTKHQIACFDQVLADLKAR-GIE--VGKIHI 196 (368)
T ss_pred ---------------HHHHHH-HhCCCCcEEEEECCCCCCCCCCCcCchHHHHHHHHHHHHHHHHHhc-CCC--CCcEEe
Confidence 455556 46899999999999886543221 1223344555556666543 443 346888
Q ss_pred CCcch
Q psy2326 170 GMSSD 174 (181)
Q Consensus 170 GMS~D 174 (181)
|-|.-
T Consensus 197 ~nSa~ 201 (368)
T cd06825 197 QSSYG 201 (368)
T ss_pred eCCHH
Confidence 88743
No 34
>cd06827 PLPDE_III_AR_proteobact Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases. This subfamily is composed mainly of proteobacterial alanine racemases (EC 5.1.1.1), fold type III PLP-dependent enzymes that catalyze the interconversion between L- and D-alanine, which is an essential component of the peptidoglycan layer of bacterial cell walls. hese proteins are similar to other bacterial ARs and are fold type III PLP-dependent enzymes containing contains an N-terminal PLP-binding TIM-barrel domain and a C-terminal beta-sandwich domain. They exist as homodimers with active sites that lie at the interface between the TIM barrel domain of one subunit and the beta-sandwich domain of the other subunit. Homodimer formation and the presence of the PLP cofactor are required for catalytic activity.
Probab=98.32 E-value=6.7e-06 Score=73.55 Aligned_cols=86 Identities=17% Similarity=0.259 Sum_probs=70.3
Q ss_pred eecccccccHHhhhcCCCccEEEEeccHHHHHHHHHHHHhcCCCCCceEEEEEeCCCCCccCCCCccchhhhhhhhccCC
Q psy2326 12 FIGHLQSNKVPKVIKVPNLEYIETIHDTRLATQVNNAWAKHQPDKKLKVFCQINTSGEENKHGAHPEHAEALVSHVINSC 91 (181)
Q Consensus 12 fIG~LQsNKvk~l~~~~~~~~I~sVDs~~lA~~L~~~~~~~~~~~~l~VliQVN~s~E~~K~Gv~p~~~~~~~~~~~~~~ 91 (181)
|-|......++.+++ ..+.-+|+|.+.++.+++.+ .++ +++|.|+||+| -+|.|+.|+++.
T Consensus 76 l~~~~~~~~~~~~~~---~~l~~~v~s~~~l~~l~~~~--~~~--~~~v~l~vDtG--m~R~Gi~~~e~~---------- 136 (354)
T cd06827 76 LEGFFSADELPLAAE---YNLWTVVHSEEQLEWLEQAA--LSK--PLNVWLKLDSG--MHRLGFSPEEYA---------- 136 (354)
T ss_pred EECCCCHHHHHHHHH---cCCEEEECCHHHHHHHHHhc--CCC--CeEEEEEeeCC--cCCCCCCHHHHH----------
Confidence 335555567777765 46799999999999999876 344 78999999999 899999998887
Q ss_pred CCCcccCCCCCCchhHHHHHHHHHhhCCCceEeeeeecCCCCC
Q psy2326 92 PNLEFTDKHGAHPEHAEALVSHVINSCPNLEFTGLMTIGKYGY 134 (181)
Q Consensus 92 ~~~~~~~~~~~~~~~~~~l~~~i~~~~p~L~l~GLMTi~~~~~ 134 (181)
++++.+ .++++|++.|+||+-+..+
T Consensus 137 -----------------~~~~~i-~~~~~l~l~Gi~tH~a~ad 161 (354)
T cd06827 137 -----------------AAYQRL-KASPNVASIVLMTHFACAD 161 (354)
T ss_pred -----------------HHHHHH-HhCCCceEEEEEeeccCCC
Confidence 788877 5689999999999987543
No 35
>PRK11930 putative bifunctional UDP-N-acetylmuramoyl-tripeptide:D-alanyl-D-alanine ligase/alanine racemase; Provisional
Probab=98.30 E-value=8.6e-06 Score=79.61 Aligned_cols=121 Identities=14% Similarity=0.137 Sum_probs=86.6
Q ss_pred ecccccccHHhhhcCCCccEEEEeccHHHHHHHHHHHHhcC-CCCCceEEEEEeCCCCCccCCCCccchhhhhhhhccCC
Q psy2326 13 IGHLQSNKVPKVIKVPNLEYIETIHDTRLATQVNNAWAKHQ-PDKKLKVFCQINTSGEENKHGAHPEHAEALVSHVINSC 91 (181)
Q Consensus 13 IG~LQsNKvk~l~~~~~~~~I~sVDs~~lA~~L~~~~~~~~-~~~~l~VliQVN~s~E~~K~Gv~p~~~~~~~~~~~~~~ 91 (181)
.|+. ...+..+++ ..+.-+|+|.+.++.+++.+.+.+ . +++|.|.|||| -+|.|+.|+++.
T Consensus 537 l~~~-~~~~~~~~~---~~l~~~i~s~~~l~~l~~~~~~~~~~--~~~v~l~vDtG--m~R~G~~~~~~~---------- 598 (822)
T PRK11930 537 MNPE-PTSFDTIID---YKLEPEIYSFRLLDAFIKAAQKKGIT--GYPIHIKIDTG--MHRLGFEPEDIP---------- 598 (822)
T ss_pred EeCC-HHHHHHHHH---cCCEEEECCHHHHHHHHHHHHHcCCC--ceEEEEEeeCC--CCCCCCChHHHH----------
Confidence 3554 345666665 468899999999999999888776 6 89999999999 889999998877
Q ss_pred CCCcccCCCCCCchhHHHHHHHHHhhCCCceEeeeeecCCCCCCCCCC---ccHHHHHHHHHHHHHHHhcCCCCCCCEEe
Q psy2326 92 PNLEFTDKHGAHPEHAEALVSHVINSCPNLEFTGLMTIGKYGYDTKHG---PNPDFLELAKCRKDVCKKLNLNESNVELS 168 (181)
Q Consensus 92 ~~~~~~~~~~~~~~~~~~l~~~i~~~~p~L~l~GLMTi~~~~~d~~~~---~~~~F~~L~~l~~~l~~~~~~~~~~~~LS 168 (181)
++++.+ .++|+|++.|+||+-+..++ .+. .+..+++..++.+.+.+..+.. ...|
T Consensus 599 -----------------~~~~~i-~~~~~l~~~Gi~tH~~~ad~-~~~~~~~~~q~~~f~~~~~~l~~~~~~~---~~~h 656 (822)
T PRK11930 599 -----------------ELARRL-KKQPALKVRSVFSHLAGSDD-PDHDDFTRQQIELFDEGSEELQEALGYK---PIRH 656 (822)
T ss_pred -----------------HHHHHH-HhCCCCcEEEEECCCCCCCC-CCchHHHHHHHHHHHHHHHHHhhccCCC---CcEE
Confidence 788887 57999999999999886543 221 2334455555555565432221 2456
Q ss_pred eCCcc
Q psy2326 169 MGMSS 173 (181)
Q Consensus 169 MGMS~ 173 (181)
++-|.
T Consensus 657 ~~nS~ 661 (822)
T PRK11930 657 ILNSA 661 (822)
T ss_pred ccCCH
Confidence 66554
No 36
>PRK03646 dadX alanine racemase; Reviewed
Probab=98.21 E-value=8.6e-06 Score=72.98 Aligned_cols=84 Identities=15% Similarity=0.237 Sum_probs=68.7
Q ss_pred cccccccHHhhhcCCCccEEEEeccHHHHHHHHHHHHhcCCCCCceEEEEEeCCCCCccCCCCccchhhhhhhhccCCCC
Q psy2326 14 GHLQSNKVPKVIKVPNLEYIETIHDTRLATQVNNAWAKHQPDKKLKVFCQINTSGEENKHGAHPEHAEALVSHVINSCPN 93 (181)
Q Consensus 14 G~LQsNKvk~l~~~~~~~~I~sVDs~~lA~~L~~~~~~~~~~~~l~VliQVN~s~E~~K~Gv~p~~~~~~~~~~~~~~~~ 93 (181)
|......+..+++ ..+..+|+|.+.++.|++.+ .++ +++|.|.|||| -+|.|+.|+++.
T Consensus 80 ~~~~~~~~~~~~~---~~l~~~i~s~~~l~~l~~~~--~~~--~~~vhLkvDTG--M~R~G~~~~e~~------------ 138 (355)
T PRK03646 80 GFFHAQDLELYDQ---HRLTTCVHSNWQLKALQNAR--LKA--PLDIYLKVNSG--MNRLGFQPERVQ------------ 138 (355)
T ss_pred CCCCHHHHHHHHH---CCCEEEECCHHHHHHHHHhc--cCC--CeEEEEEeeCC--CCCCCCCHHHHH------------
Confidence 3334456776665 57999999999999998875 344 89999999999 889999998887
Q ss_pred CcccCCCCCCchhHHHHHHHHHhhCCCceEeeeeecCCCCC
Q psy2326 94 LEFTDKHGAHPEHAEALVSHVINSCPNLEFTGLMTIGKYGY 134 (181)
Q Consensus 94 ~~~~~~~~~~~~~~~~l~~~i~~~~p~L~l~GLMTi~~~~~ 134 (181)
++++.+ ..+|+|++.|+||+=+..+
T Consensus 139 ---------------~~~~~i-~~~~~l~~~Gi~sH~a~ad 163 (355)
T PRK03646 139 ---------------TVWQQL-RAMGNVGEMTLMSHFARAD 163 (355)
T ss_pred ---------------HHHHHH-HhCCCCEEEEEEcCCCCCC
Confidence 788887 5789999999999877643
No 37
>TIGR03099 dCO2ase_PEP1 pyridoxal-dependent decarboxylase, exosortase system type 1 associated. The sequences in this family contain the pyridoxal binding domain (pfam02784) and C-terminal sheet domain (pfam00278) of a family of Pyridoxal-dependent decarboxylases. Characterized enzymes in this family decarboxylate substrates such as ornithine, diaminopimelate and arginine. The genes of the family modeled here, with the exception of those observed in certain Burkholderia species, are all found in the context of exopolysaccharide biosynthesis loci containing the exosortase/PEP-CTERM protein sorting system. More specifically, these are characteristic of the type 1 exosortase system represented by the Genome Property GenProp0652. The substrate of these enzymes may be a precursor of the carrier or linker which is hypothesized to release the PEP-CTERM protein from the exosortase enzyme. These enzymes are apparently most closely related to the diaminopimelate decarboxylase modeled by TIGR01048
Probab=98.19 E-value=3.1e-05 Score=69.27 Aligned_cols=88 Identities=14% Similarity=0.276 Sum_probs=68.3
Q ss_pred eeeccc-ccccHHhhhcCCCccEEEEeccHHHHHHHHHHHHhcCCCCCceEEEEEeCC-----------CCCccCCCCcc
Q psy2326 11 HFIGHL-QSNKVPKVIKVPNLEYIETIHDTRLATQVNNAWAKHQPDKKLKVFCQINTS-----------GEENKHGAHPE 78 (181)
Q Consensus 11 HfIG~L-QsNKvk~l~~~~~~~~I~sVDs~~lA~~L~~~~~~~~~~~~l~VliQVN~s-----------~E~~K~Gv~p~ 78 (181)
.|-|+. ...-++.+++ ..++-+|||.+-++.|.+.+.+.+. +.+|+|.||.+ +..+|+|++++
T Consensus 97 ~~~gp~k~~~~l~~a~~---~gv~i~vDs~~el~~l~~~a~~~~~--~~~v~LRin~~~~~~~~~~~~~~~~srFGi~~~ 171 (398)
T TIGR03099 97 SFAGPGKTDAELRRALA---AGVLINVESLRELNRLAALSEALGL--RARVAVRVNPDFELKGSGMKMGGGAKQFGIDAE 171 (398)
T ss_pred EEeCCCCCHHHHHHHHh---CCCEEEECCHHHHHHHHHHHHhcCC--CCcEEEEECCCCCCCCcccccCCCCCcCCCCHH
Confidence 456775 4444666654 3457899999999999999887776 78999999973 23589999998
Q ss_pred chhhhhhhhccCCCCCcccCCCCCCchhHHHHHHHHHhhCCCceEeeeeecCCC
Q psy2326 79 HAEALVSHVINSCPNLEFTDKHGAHPEHAEALVSHVINSCPNLEFTGLMTIGKY 132 (181)
Q Consensus 79 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~i~~~~p~L~l~GLMTi~~~ 132 (181)
++. ++++.+ .+. +|++.|+..+.+.
T Consensus 172 e~~---------------------------~~~~~~-~~~-~l~l~Glh~h~gs 196 (398)
T TIGR03099 172 QVP---------------------------AALAFI-KAA-DLDFQGFHIFAGS 196 (398)
T ss_pred HHH---------------------------HHHHHH-HhC-CCeEEEEEecccc
Confidence 887 788887 456 8999999877764
No 38
>cd06841 PLPDE_III_MccE_like Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme MccE. This subfamily is composed of uncharacterized proteins with similarity to Escherichia coli MccE, a hypothetical protein that is homologous to eukaryotic ornithine decarboxylase (ODC) and diaminopimelate decarboxylase (DapDC). ODC and DapDC are fold type III PLP-dependent enzymes that contain an N-terminal PLP-binding TIM-barrel domain and a C-terminal beta-sandwich domain, similar to bacterial alanine racemases. ODC participates in the formation of putrescine by catalyzing the decarboxylation of ornithine, the first step in polyamine biosynthesis. DapDC participates in the last step of lysine biosynthesis, the conversion of meso-2,6-diaminoheptanedioate to L-lysine. Most members of this subfamily share the same domain architecture as ODC and DapDC. A few members, including Escherichia coli MccE, contain an additional acetyltransferase domain at the C-terminus.
Probab=98.05 E-value=7.4e-05 Score=66.53 Aligned_cols=93 Identities=16% Similarity=0.110 Sum_probs=69.5
Q ss_pred eeeccccc-ccHHhhhcCCCccEEEEeccHHHHHHHHHHHHhcCCCCCceEEEEEeCCCC---CccCCCCccchhhhhhh
Q psy2326 11 HFIGHLQS-NKVPKVIKVPNLEYIETIHDTRLATQVNNAWAKHQPDKKLKVFCQINTSGE---ENKHGAHPEHAEALVSH 86 (181)
Q Consensus 11 HfIG~LQs-NKvk~l~~~~~~~~I~sVDs~~lA~~L~~~~~~~~~~~~l~VliQVN~s~E---~~K~Gv~p~~~~~~~~~ 86 (181)
.|-|+..+ ..++.+++. .++-+|||..-++.|.+.+.+.++ +.+|.|.||+... .+|.|++++++.++
T Consensus 82 i~~g~~k~~~~l~~a~~~---g~~i~ids~~el~~l~~~~~~~~~--~~~v~lRv~~~~g~~~~~rfGi~~~e~~~~--- 153 (379)
T cd06841 82 IFNGPYKSKEELEKALEE---GALINIDSFDELERILEIAKELGR--VAKVGIRLNMNYGNNVWSRFGFDIEENGEA--- 153 (379)
T ss_pred EEECCCCCHHHHHHHHHC---CCEEEECCHHHHHHHHHHHHhcCC--cceEEEEECCCCCCCCCCCCCCchhhhHHH---
Confidence 45577765 556666652 357899999999999999887776 7999999998544 79999999887611
Q ss_pred hccCCCCCcccCCCCCCchhHHHHHHHHHhhCCCceEeeeeecCCCC
Q psy2326 87 VINSCPNLEFTDKHGAHPEHAEALVSHVINSCPNLEFTGLMTIGKYG 133 (181)
Q Consensus 87 ~~~~~~~~~~~~~~~~~~~~~~~l~~~i~~~~p~L~l~GLMTi~~~~ 133 (181)
...+..+ .+.++|++.|++++-+..
T Consensus 154 ---------------------~~~~~~~-~~~~~l~~~Glh~H~gs~ 178 (379)
T cd06841 154 ---------------------LAALKKI-QESKNLSLVGLHCHVGSN 178 (379)
T ss_pred ---------------------HHHHHHh-hcCCCeeEEEEEecCCCc
Confidence 1334443 345899999999998754
No 39
>COG3457 Predicted amino acid racemase [Amino acid transport and metabolism]
Probab=97.73 E-value=0.00046 Score=62.53 Aligned_cols=115 Identities=16% Similarity=0.258 Sum_probs=90.1
Q ss_pred cHHhhhcCCCccEEEEeccHHHHHHHHHHHHhcCCCCCceEEEEEeCCCCCccCCCCc---cchhhhhhhhccCCCCCcc
Q psy2326 20 KVPKVIKVPNLEYIETIHDTRLATQVNNAWAKHQPDKKLKVFCQINTSGEENKHGAHP---EHAEALVSHVINSCPNLEF 96 (181)
Q Consensus 20 Kvk~l~~~~~~~~I~sVDs~~lA~~L~~~~~~~~~~~~l~VliQVN~s~E~~K~Gv~p---~~~~~~~~~~~~~~~~~~~ 96 (181)
.++.+++ +++ +-++-++..|++|++++.+.++ ..+|++-|+.++ -+-|+-+ ++++
T Consensus 86 ei~~vv~--~~D-vs~~sel~~arqlse~A~~~Gk--~h~VlLmVd~~D--lreG~~~~~~~~l~--------------- 143 (353)
T COG3457 86 EIEDVVR--KVD-VSTVSELDTARQLSEAAVRMGK--VHDVLLMVDYGD--LREGQWGFLIEDLE--------------- 143 (353)
T ss_pred HHHHHHH--hcC-eEEEecHHHHHHHHHHHHHhCc--ceeEEEEEEccc--ccCcchhhHHHHHH---------------
Confidence 4556665 677 7788999999999999999998 999999999984 6778766 5555
Q ss_pred cCCCCCCchhHHHHHHHHHhhCCCceEeee----eecCCCCCCCCCCccHHHHHHHHHHHHHHHhcCCCCCCCEEeeCCc
Q psy2326 97 TDKHGAHPEHAEALVSHVINSCPNLEFTGL----MTIGKYGYDTKHGPNPDFLELAKCRKDVCKKLNLNESNVELSMGMS 172 (181)
Q Consensus 97 ~~~~~~~~~~~~~l~~~i~~~~p~L~l~GL----MTi~~~~~d~~~~~~~~F~~L~~l~~~l~~~~~~~~~~~~LSMGMS 172 (181)
+-+++| ..||++++.|| |++|..- .+...|..|.+.++.|.+..|++ ...+|-|-|
T Consensus 144 ------------~~V~eI-~~lkGi~~vGlgTnF~Cfg~v~-----PTp~n~~~ll~~~~~lE~~~Gi~--l~~vsagna 203 (353)
T COG3457 144 ------------ETVEEI-QQLKGIHLVGLGTNFPCFGDVL-----PTPENLESLLQGKKKLEASSGIQ--LKQVSAGNA 203 (353)
T ss_pred ------------HHHHHH-hcCCCceEEeeecccccccCcC-----CCcccHHHHHHHHHHHHHhcCce--eEEecCCCc
Confidence 788888 68999999999 4443221 23346888999999998877875 788998887
Q ss_pred chHH
Q psy2326 173 SDLR 176 (181)
Q Consensus 173 ~D~~ 176 (181)
.-+.
T Consensus 204 ts~~ 207 (353)
T COG3457 204 TSLT 207 (353)
T ss_pred cchh
Confidence 6553
No 40
>cd06830 PLPDE_III_ADC Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Arginine Decarboxylase. This subfamily includes plants and biosynthetic prokaryotic arginine decarboxylases (ADC, EC 4.1.1.19). ADC is involved in the biosynthesis of putrescine, which is the precursor of aliphatic polyamines in many organisms. It catalyzes the decarboxylation of L-arginine to agmatine, which is then hydrolyzed to putrescine by agmatinase. ADC is homologous to eukaryotic ornithine decarboxylase (ODC) and diaminopimelate decarboxylase (DapDC), which are fold type III PLP-dependent enzymes that contain an N-terminal PLP-binding TIM-barrel domain and a C-terminal beta-sandwich domain, similar to bacterial alanine racemases. Homodimer formation and the presence of both PLP and Mg2+ cofactors may be required for catalytic activity. Prokaryotic ADCs (biodegradative), which are fold type I PLP-dependent enzymes, are not included in this family.
Probab=97.69 E-value=0.00065 Score=61.74 Aligned_cols=106 Identities=14% Similarity=0.002 Sum_probs=76.2
Q ss_pred EEEEeccHHHHHHHHHHHHhcCCCCCceEEEEEeCCC-----------CCccCCCCccchhhhhhhhccCCCCCcccCCC
Q psy2326 32 YIETIHDTRLATQVNNAWAKHQPDKKLKVFCQINTSG-----------EENKHGAHPEHAEALVSHVINSCPNLEFTDKH 100 (181)
Q Consensus 32 ~I~sVDs~~lA~~L~~~~~~~~~~~~l~VliQVN~s~-----------E~~K~Gv~p~~~~~~~~~~~~~~~~~~~~~~~ 100 (181)
++-+|||..-.+.|.+.+.+.++ +.+|+|-||.+. ..+|+|++++++.
T Consensus 114 v~i~vDs~~EL~~l~~~a~~~~~--~~~v~lRinp~~~~~~~~~~~~~~~sKFGi~~~~~~------------------- 172 (409)
T cd06830 114 VIIVIEKLSELDLILELAKKLGV--KPLLGVRIKLASKGSGKWQESGGDRSKFGLTASEIL------------------- 172 (409)
T ss_pred EEEEECCHHHHHHHHHHHHHcCC--CceEEEEEccCCCCCcceeccCCCCCCCCCCHHHHH-------------------
Confidence 46799999999999999988776 789999998753 4589999998887
Q ss_pred CCCchhHHHHHHHHHhhC-CCceEeeeeecCCCCCCCCCCccHHHHHHHHHHHHHHHhcCCCCCCCEEeeC
Q psy2326 101 GAHPEHAEALVSHVINSC-PNLEFTGLMTIGKYGYDTKHGPNPDFLELAKCRKDVCKKLNLNESNVELSMG 170 (181)
Q Consensus 101 ~~~~~~~~~l~~~i~~~~-p~L~l~GLMTi~~~~~d~~~~~~~~F~~L~~l~~~l~~~~~~~~~~~~LSMG 170 (181)
++++.+. +. ++|++.||-.+-+-.-...+.-...++.+.++.+.+++. +.+ +..|.+|
T Consensus 173 --------~~~~~~~-~~~~~l~l~GlH~H~GSq~~~~~~~~~~~~~~~~~~~~~~~~-g~~--l~~iDiG 231 (409)
T cd06830 173 --------EVVEKLK-EAGMLDRLKLLHFHIGSQITDIRRIKSALREAARIYAELRKL-GAN--LRYLDIG 231 (409)
T ss_pred --------HHHHHHH-hcCcCCeEEEEEEecCCCCCCHHHHHHHHHHHHHHHHHHHHh-CCC--CcEEEcC
Confidence 7777774 44 589999998886533211222344567777777777653 543 4455544
No 41
>COG0019 LysA Diaminopimelate decarboxylase [Amino acid transport and metabolism]
Probab=97.69 E-value=0.00054 Score=62.83 Aligned_cols=127 Identities=16% Similarity=0.147 Sum_probs=86.5
Q ss_pred eeeeeccccccc-HHhhhcCCCccEEEEeccHHHHHHHHHHHHhcCCCCCceEEEEEeCC------------CCCccCCC
Q psy2326 9 RWHFIGHLQSNK-VPKVIKVPNLEYIETIHDTRLATQVNNAWAKHQPDKKLKVFCQINTS------------GEENKHGA 75 (181)
Q Consensus 9 ~WHfIG~LQsNK-vk~l~~~~~~~~I~sVDs~~lA~~L~~~~~~~~~~~~l~VliQVN~s------------~E~~K~Gv 75 (181)
+=||=|.-.+.. +..+++ +-.-.-.|||..-.++|++.+... +.+|++-||.+ ++.+|+|+
T Consensus 98 ~I~f~g~~ks~~ei~~a~e--~gi~~i~vdS~~El~~l~~~a~~~----~~~v~lRInP~~~~~th~~~~tg~~~sKFG~ 171 (394)
T COG0019 98 RIVFSGPAKSEEEIAFALE--LGIKLINVDSEEELERLSAIAPGL----VARVSLRINPGVSAGTHEYIATGGKSSKFGI 171 (394)
T ss_pred hEEECCCCCCHHHHHHHHH--cCCcEEEeCCHHHHHHHHHhcccc----CceEEEEECCCCCCccCccccCCccccccCC
Confidence 457777777766 444544 222247899999999999887653 46788888864 55689999
Q ss_pred CccchhhhhhhhccCCCCCcccCCCCCCchhHHHHHHHHHhhCCCceEeeeeecCCCCCCCCCCccHHHHHHHHHHHHHH
Q psy2326 76 HPEHAEALVSHVINSCPNLEFTDKHGAHPEHAEALVSHVINSCPNLEFTGLMTIGKYGYDTKHGPNPDFLELAKCRKDVC 155 (181)
Q Consensus 76 ~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~i~~~~p~L~l~GLMTi~~~~~d~~~~~~~~F~~L~~l~~~l~ 155 (181)
.++++. +..+.. .+.+++++.||+.+-+-.....+.-...++.+.+++.++.
T Consensus 172 ~~~~a~---------------------------~~~~~~-~~~~~l~~~Glh~HiGSq~~d~~~~~~a~~~~~~~~~~~~ 223 (394)
T COG0019 172 SPEEAL---------------------------DVLERA-AKLLGLELVGLHFHIGSQITDLDPFEEALAKVEELFGRLA 223 (394)
T ss_pred CHHHHH---------------------------HHHHHH-HhcCCCceEEEEEeecCCCCCcHHHHHHHHHHHHHHHHHH
Confidence 998876 666665 4689999999999865332111112334566667777776
Q ss_pred HhcCCCCCCCEEeeCC
Q psy2326 156 KKLNLNESNVELSMGM 171 (181)
Q Consensus 156 ~~~~~~~~~~~LSMGM 171 (181)
+.+|+. ...|++|-
T Consensus 224 ~~~g~~--l~~inlGG 237 (394)
T COG0019 224 EELGIQ--LEWLNLGG 237 (394)
T ss_pred HhhCCC--ceEEEecC
Confidence 556664 67888873
No 42
>PF02784 Orn_Arg_deC_N: Pyridoxal-dependent decarboxylase, pyridoxal binding domain; InterPro: IPR022644 These enzymes are collectively known as group IV decarboxylases []. Pyridoxal-dependent decarboxylases acting on ornithine, lysine, arginine and related substrates can be classified into two different families on the basis of sequence similarities [, ]. Members of this family while most probably evolutionary related, do not share extensive regions of sequence similarities. The proteins contain a conserved lysine residue which is known, in mouse ODC [], to be the site of attachment of the pyridoxal-phosphate group. The proteins also contain a stretch of three consecutive glycine residues and has been proposed to be part of a substrate- binding region [].; GO: 0003824 catalytic activity; PDB: 2OO0_A 2ON3_A 1D7K_B 3VAB_A 2J66_A 3C5Q_A 2QGH_A 1TWI_B 1TUF_A 3N2O_A ....
Probab=97.59 E-value=0.00045 Score=58.12 Aligned_cols=123 Identities=18% Similarity=0.189 Sum_probs=79.8
Q ss_pred eeeeecccccccH-HhhhcCCCccEEEEeccHHHHHHHHHHHHhcCCCCCceEEEEEeCC------------CCCccCCC
Q psy2326 9 RWHFIGHLQSNKV-PKVIKVPNLEYIETIHDTRLATQVNNAWAKHQPDKKLKVFCQINTS------------GEENKHGA 75 (181)
Q Consensus 9 ~WHfIG~LQsNKv-k~l~~~~~~~~I~sVDs~~lA~~L~~~~~~~~~~~~l~VliQVN~s------------~E~~K~Gv 75 (181)
+-.|-|+..+..- +.++. +--..-.|||..-.+.|.+.+.+. +|+|-||.+ +..+|+|+
T Consensus 66 ~Ii~~gp~k~~~~l~~a~~--~~~~~i~vDs~~el~~l~~~~~~~------~v~lRin~~~~~~~~~~~~~g~~~skFGi 137 (251)
T PF02784_consen 66 RIIFTGPGKSDEELEEAIE--NGVATINVDSLEELERLAELAPEA------RVGLRINPGIGAGSHPKISTGGKDSKFGI 137 (251)
T ss_dssp GEEEECSS--HHHHHHHHH--HTESEEEESSHHHHHHHHHHHCTH------EEEEEBE-SESTTTSCHHCSSSHTSSSSB
T ss_pred ceeEecCcccHHHHHHHHh--CCceEEEeCCHHHHHHHhccCCCc------eeeEEEeeccccccccccCCCCCCCcCCc
Confidence 4567788777763 33333 122355899999999999887643 678877765 34579999
Q ss_pred Cccc-hhhhhhhhccCCCCCcccCCCCCCchhHHHHHHHHHhhCCCceEeeeeecCCCC-CCCCCCccHHHHHHHHHHHH
Q psy2326 76 HPEH-AEALVSHVINSCPNLEFTDKHGAHPEHAEALVSHVINSCPNLEFTGLMTIGKYG-YDTKHGPNPDFLELAKCRKD 153 (181)
Q Consensus 76 ~p~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~i~~~~p~L~l~GLMTi~~~~-~d~~~~~~~~F~~L~~l~~~ 153 (181)
++++ +. ++.+.+ .+.+ +++.||..+-+-. .+ .+.-....+.+.++.++
T Consensus 138 ~~~~~~~---------------------------~~l~~~-~~~~-l~l~GlH~H~gS~~~~-~~~~~~~~~~~~~~~~~ 187 (251)
T PF02784_consen 138 DIEEEAE---------------------------EALERA-KELG-LRLVGLHFHVGSQILD-AEAFRQAIERLLDLAEE 187 (251)
T ss_dssp EGGGHHH---------------------------HHHHHH-HHTT-EEEEEEEE-HCSSBSS-CHHHHHHHHHHHHHHHH
T ss_pred ChHHHHH---------------------------HHHHhh-ccce-EEEEEeeeeeccCCcc-hHHHHHHHHHHHHHHhh
Confidence 9999 77 777777 5677 9999999995432 22 21223455667777788
Q ss_pred HHHhcCCCCCCCEEeeC
Q psy2326 154 VCKKLNLNESNVELSMG 170 (181)
Q Consensus 154 l~~~~~~~~~~~~LSMG 170 (181)
+.+++|.+ ....|.+|
T Consensus 188 ~~~~~g~~-~l~~idiG 203 (251)
T PF02784_consen 188 LKEELGFE-DLEFIDIG 203 (251)
T ss_dssp HHHHTTTT-T-SEEEEE
T ss_pred hccccccc-cccEEEee
Confidence 87677753 24566665
No 43
>cd00622 PLPDE_III_ODC Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Ornithine Decarboxylase. This subfamily is composed mainly of eukaryotic ornithine decarboxylases (ODC, EC 4.1.1.17) and ODC-like enzymes from prokaryotes represented by Vibrio vulnificus LysineOrnithine decarboxylase. These are fold type III PLP-dependent enzymes that differ from most bacterial ODCs which are fold type I PLP-dependent enzymes. ODC participates in the formation of putrescine by catalyzing the decarboxylation of ornithine, the first step in polyamine biosynthesis. Members of this subfamily contain an N-terminal PLP-binding TIM-barrel domain and a C-terminal beta-sandwich domain, similar to bacterial alanine racemases. They exist as homodimers with active sites that lie at the interface between the TIM barrel domain of one subunit and the beta-sandwich domain of the other subunit. Homodimer formation and the presence of the PLP cofactor are required for catalytic activity. Also members of this su
Probab=97.46 E-value=0.0023 Score=56.35 Aligned_cols=123 Identities=15% Similarity=0.161 Sum_probs=74.8
Q ss_pred eeeeccc-ccccHHhhhcCCCccEEEEeccHHHHHHHHHHHHhcCCCCCceEEEEEeCCCCC----ccCCCCccchhhhh
Q psy2326 10 WHFIGHL-QSNKVPKVIKVPNLEYIETIHDTRLATQVNNAWAKHQPDKKLKVFCQINTSGEE----NKHGAHPEHAEALV 84 (181)
Q Consensus 10 WHfIG~L-QsNKvk~l~~~~~~~~I~sVDs~~lA~~L~~~~~~~~~~~~l~VliQVN~s~E~----~K~Gv~p~~~~~~~ 84 (181)
-.|-|+. ....++.+++. ++..+ .+||..-++.+.+.+.. . ++.|-|.++++... +|.|++++++.
T Consensus 72 i~~~~~~k~~~~l~~a~~~-gi~~~-~~ds~~el~~l~~~~~~--~--~v~vri~~~~~~~~~~~~sRfGi~~~~~~--- 142 (362)
T cd00622 72 IIFANPCKSISDIRYAAEL-GVRLF-TFDSEDELEKIAKHAPG--A--KLLLRIATDDSGALCPLSRKFGADPEEAR--- 142 (362)
T ss_pred EEEcCCCCCHHHHHHHHHc-CCCEE-EECCHHHHHHHHHHCCC--C--EEEEEEeeCCCCCCCcccCCCCCCHHHHH---
Confidence 3456655 44557777652 34333 48999999999887632 2 34444445544322 38999998887
Q ss_pred hhhccCCCCCcccCCCCCCchhHHHHHHHHHhhCCCceEeeeeecCCCCCCCCCCccHHHHHHHHHHHHHHHhcCCCCCC
Q psy2326 85 SHVINSCPNLEFTDKHGAHPEHAEALVSHVINSCPNLEFTGLMTIGKYGYDTKHGPNPDFLELAKCRKDVCKKLNLNESN 164 (181)
Q Consensus 85 ~~~~~~~~~~~~~~~~~~~~~~~~~l~~~i~~~~p~L~l~GLMTi~~~~~d~~~~~~~~F~~L~~l~~~l~~~~~~~~~~ 164 (181)
++++.+ .+ .++++.|++++-+......+......+.+.++.+.+.+ .+.. .
T Consensus 143 ------------------------~~~~~~-~~-~~~~~~Glh~H~gs~~~~~~~~~~~~~~~~~~~~~l~~-~~~~--~ 193 (362)
T cd00622 143 ------------------------ELLRRA-KE-LGLNVVGVSFHVGSQCTDPSAYVDAIADAREVFDEAAE-LGFK--L 193 (362)
T ss_pred ------------------------HHHHHH-HH-cCCEEEEEEEeCCCCCCCHHHHHHHHHHHHHHHHHHHh-cCCC--c
Confidence 777777 44 58999999999875322111123344555666666654 3433 4
Q ss_pred CEEeeC
Q psy2326 165 VELSMG 170 (181)
Q Consensus 165 ~~LSMG 170 (181)
..++.|
T Consensus 194 ~~id~G 199 (362)
T cd00622 194 KLLDIG 199 (362)
T ss_pred CEEEeC
Confidence 455544
No 44
>COG0787 Alr Alanine racemase [Cell envelope biogenesis, outer membrane]
Probab=97.38 E-value=0.0026 Score=58.11 Aligned_cols=72 Identities=25% Similarity=0.305 Sum_probs=62.3
Q ss_pred ccEEEEeccHHHHHHHHHHHHhcCCCCCceEEEEEeCCCCCccCCCCccchhhhhhhhccCCCCCcccCCCCCCchhHHH
Q psy2326 30 LEYIETIHDTRLATQVNNAWAKHQPDKKLKVFCQINTSGEENKHGAHPEHAEALVSHVINSCPNLEFTDKHGAHPEHAEA 109 (181)
Q Consensus 30 ~~~I~sVDs~~lA~~L~~~~~~~~~~~~l~VliQVN~s~E~~K~Gv~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 109 (181)
..+..+|.|.+.++.+.+++.+. + +++|.+.|||| -+|.|+.|++.. .
T Consensus 97 ~~l~~~v~s~~ql~~l~~~~~~~-~--~l~vhLkiDTG--M~RlG~~~~e~~---------------------------~ 144 (360)
T COG0787 97 YNLTPVVNSLEQLEALKNAALKN-K--PLKVHLKIDTG--MNRLGLRPEEAV---------------------------A 144 (360)
T ss_pred cCCeEEECCHHHHHHHHHhhhhc-C--ceEEEEEECCC--CCcCCCChHHHH---------------------------H
Confidence 46889999999999999988876 5 89999999999 999999999877 6
Q ss_pred HHHHHHhhCCCceEeeeeecCCCCC
Q psy2326 110 LVSHVINSCPNLEFTGLMTIGKYGY 134 (181)
Q Consensus 110 l~~~i~~~~p~L~l~GLMTi~~~~~ 134 (181)
++..+ ..++++.+.|+||+=+..+
T Consensus 145 ~~~~~-~~~~~~~~~gi~SHfa~AD 168 (360)
T COG0787 145 LAIDL-IALKNLDLEGIFSHFACAD 168 (360)
T ss_pred HHHHH-hhccCCceEEEEcccCCCC
Confidence 77776 4688999999999976543
No 45
>PRK11165 diaminopimelate decarboxylase; Provisional
Probab=97.22 E-value=0.0052 Score=56.15 Aligned_cols=117 Identities=17% Similarity=0.231 Sum_probs=75.9
Q ss_pred eeeeccccc-ccHHhhhcCCCccEEEEeccHHHHHHHHHHHHhcCCCCCceEEEEEeCC------------CCCccCCCC
Q psy2326 10 WHFIGHLQS-NKVPKVIKVPNLEYIETIHDTRLATQVNNAWAKHQPDKKLKVFCQINTS------------GEENKHGAH 76 (181)
Q Consensus 10 WHfIG~LQs-NKvk~l~~~~~~~~I~sVDs~~lA~~L~~~~~~~~~~~~l~VliQVN~s------------~E~~K~Gv~ 76 (181)
=.|-|+..+ .+++.+++. . +...|||..-++.|++.+. ..+|+|.||.+ +..+|+|++
T Consensus 97 Ii~~gp~k~~~~l~~a~~~-g--v~i~vDs~~el~~i~~~~~------~~~v~lRvn~~~~~~~~~~~~~~~~~sKFGi~ 167 (420)
T PRK11165 97 IVFTADVIDRATLARVVEL-K--IPVNAGSIDMLDQLGQVSP------GHRVWLRINPGFGHGHSQKTNTGGENSKHGIW 167 (420)
T ss_pred EEEeCCCCCHHHHHHHHHC-C--CEEEECCHHHHHHHHHhcC------CCcEEEEECCCCCCCCCCceecCCCCCCCCCC
Confidence 356688755 457777763 3 3557999999999998764 35799999864 346789998
Q ss_pred ccchhhhhhhhccCCCCCcccCCCCCCchhHHHHHHHHHhhCCCceEeeeeecCCCCCCCCCCccHHHHHHH-HHHHHHH
Q psy2326 77 PEHAEALVSHVINSCPNLEFTDKHGAHPEHAEALVSHVINSCPNLEFTGLMTIGKYGYDTKHGPNPDFLELA-KCRKDVC 155 (181)
Q Consensus 77 p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~i~~~~p~L~l~GLMTi~~~~~d~~~~~~~~F~~L~-~l~~~l~ 155 (181)
++++. .+.+.+ +. ++|+|.||+++.+...+ . ..|.+.. .+.+ +.
T Consensus 168 ~~~~~---------------------------~~~~~~-~~-~~l~l~GlH~H~GS~~~----~-~~~~~~~~~l~~-~~ 212 (420)
T PRK11165 168 HEDLP---------------------------AALAVI-QR-YGLKLVGIHMHIGSGVD----Y-GHLEQVCGAMVR-QV 212 (420)
T ss_pred HHHHH---------------------------HHHHHH-Hh-CCCcEEEEEEeccCCCC----h-HHHHHHHHHHHH-HH
Confidence 87766 555555 33 68999999999875432 1 2233332 2233 33
Q ss_pred HhcCCCCCCCEEeeCCc
Q psy2326 156 KKLNLNESNVELSMGMS 172 (181)
Q Consensus 156 ~~~~~~~~~~~LSMGMS 172 (181)
+..+.. +..|++|-.
T Consensus 213 ~~~g~~--~~~IdiGGG 227 (420)
T PRK11165 213 IELGQD--IEAISAGGG 227 (420)
T ss_pred HHhCCC--CcEEEeCCC
Confidence 344543 567777654
No 46
>cd06836 PLPDE_III_ODC_DapDC_like_1 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Uncharacterized Proteins with similarity to Ornithine and Diaminopimelate Decarboxylases. This subfamily contains uncharacterized proteins with similarity to ornithine decarboxylase (ODC) and diaminopimelate decarboxylase (DapDC). ODC and DapDC are fold type III PLP-dependent enzymes that contain an N-terminal PLP-binding TIM-barrel domain and a C-terminal beta-sandwich domain, similar to bacterial alanine racemases. They exist as homodimers with active sites that lie at the interface between the TIM barrel domain of one subunit and the beta-sandwich domain of the other subunit. ODC participates in the formation of putrescine by catalyzing the decarboxylation of ornithine, the first step in polyamine biosynthesis. DapDC participates in the last step of lysine biosynthesis, the conversion of meso-2,6-diaminoheptanedioate to L-lysine. Proteins in this subfamily may function as PLP-dependent decarbo
Probab=97.03 E-value=0.011 Score=53.05 Aligned_cols=124 Identities=9% Similarity=0.159 Sum_probs=77.4
Q ss_pred eeeeccccccc-HHhhhcCCCccEEEEeccHHHHHHHHHHHHh-cCCCCCceEEEEEeCC------------CCCccCCC
Q psy2326 10 WHFIGHLQSNK-VPKVIKVPNLEYIETIHDTRLATQVNNAWAK-HQPDKKLKVFCQINTS------------GEENKHGA 75 (181)
Q Consensus 10 WHfIG~LQsNK-vk~l~~~~~~~~I~sVDs~~lA~~L~~~~~~-~~~~~~l~VliQVN~s------------~E~~K~Gv 75 (181)
-.|-|+..+.. ++.+++. .+ .-.+||..-.++|.+.+.+ .+. ..+|+|.||.+ +..+|+|+
T Consensus 74 Ii~~gp~K~~~~L~~ai~~-gv--~i~iDS~~El~~i~~~a~~~~~~--~~~v~lRvnp~~~~~~~~~~~~~~~~skFG~ 148 (379)
T cd06836 74 IVFDSPAKTRAELREALEL-GV--AINIDNFQELERIDALVAEFKEA--SSRIGLRVNPQVGAGKIGALSTATATSKFGV 148 (379)
T ss_pred EEEeCCCCCHHHHHHHHHC-CC--EEEECCHHHHHHHHHHHHHhcCC--CceEEEEECCCCCCCCccccccCCCCCCCCc
Confidence 45678877765 4444442 34 3489999999999998876 554 68999999953 45689999
Q ss_pred Cccc--hhhhhhhhccCCCCCcccCCCCCCchhHHHHHHHHHhhCCCceEeeeeecCCCC-CCCCCCccHHHHHHHHHHH
Q psy2326 76 HPEH--AEALVSHVINSCPNLEFTDKHGAHPEHAEALVSHVINSCPNLEFTGLMTIGKYG-YDTKHGPNPDFLELAKCRK 152 (181)
Q Consensus 76 ~p~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~i~~~~p~L~l~GLMTi~~~~-~d~~~~~~~~F~~L~~l~~ 152 (181)
++++ +. ++...+ ...+ .+.||-.+-+-. .+ .+.....++.+..+.+
T Consensus 149 ~~~~~~~~---------------------------~~~~~~-~~~~--~l~GlH~H~GS~~~~-~~~~~~~~~~~~~l~~ 197 (379)
T cd06836 149 ALEDGARD---------------------------EIIDAF-ARRP--WLNGLHVHVGSQGCE-LSLLAEGIRRVVDLAE 197 (379)
T ss_pred CcchhHHH---------------------------HHHHHH-hcCC--CeEEEEEecccCCCC-HHHHHHHHHHHHHHHH
Confidence 9883 44 555544 3344 467999986532 22 1122334455556666
Q ss_pred HHHHhcCCCCCCCEEeeC
Q psy2326 153 DVCKKLNLNESNVELSMG 170 (181)
Q Consensus 153 ~l~~~~~~~~~~~~LSMG 170 (181)
++.+.+|. ..+..|.+|
T Consensus 198 ~l~~~~g~-~~~~~IDiG 214 (379)
T cd06836 198 EINRRVGR-RQITRIDIG 214 (379)
T ss_pred HHHHHhCC-CCCcEEEeC
Confidence 77655442 124566664
No 47
>PLN02439 arginine decarboxylase
Probab=96.96 E-value=0.013 Score=56.32 Aligned_cols=107 Identities=14% Similarity=0.056 Sum_probs=74.5
Q ss_pred ccEEEEeccHHHHHHHHHHHHhcCCCCCceEEEEEe-----------CCCCCccCCCCccchhhhhhhhccCCCCCcccC
Q psy2326 30 LEYIETIHDTRLATQVNNAWAKHQPDKKLKVFCQIN-----------TSGEENKHGAHPEHAEALVSHVINSCPNLEFTD 98 (181)
Q Consensus 30 ~~~I~sVDs~~lA~~L~~~~~~~~~~~~l~VliQVN-----------~s~E~~K~Gv~p~~~~~~~~~~~~~~~~~~~~~ 98 (181)
..++-.|||..-.+.|.+.+.+.+. +.+|.|-|| ++|+.+|+|++++++.
T Consensus 108 ~~~~IviDs~~EL~~I~~~a~~l~~--~p~IglRi~~~~~~~~~~~~tgg~~sKFGl~~~ei~----------------- 168 (559)
T PLN02439 108 LNTVIVLEQEEELDLVIEASQRLGV--RPVIGVRAKLRTKHSGHFGSTSGEKGKFGLTATEIV----------------- 168 (559)
T ss_pred CCeEEEECCHHHHHHHHHHHHHcCC--CceEEEEEecCCCCCCCccccCCCCCCCCCCHHHHH-----------------
Confidence 3466799999999999999888776 566777765 4677899999999888
Q ss_pred CCCCCchhHHHHHHHHHhhCCCce-EeeeeecCCCCCCCCCCccHHHHHHHHHHHHHHHhcCCCCCCCEEee
Q psy2326 99 KHGAHPEHAEALVSHVINSCPNLE-FTGLMTIGKYGYDTKHGPNPDFLELAKCRKDVCKKLNLNESNVELSM 169 (181)
Q Consensus 99 ~~~~~~~~~~~l~~~i~~~~p~L~-l~GLMTi~~~~~d~~~~~~~~F~~L~~l~~~l~~~~~~~~~~~~LSM 169 (181)
++++.+ .+.+.+. +.||=.+-+-.-...+......+++.++..++++ .|.+ +..|.+
T Consensus 169 ----------~~i~~l-k~~~~l~~L~GLHfHiGSQi~d~~~~~~ai~e~~~l~~eL~~-~G~~--l~~lDI 226 (559)
T PLN02439 169 ----------RVVRKL-RKEGMLDCLQLLHFHIGSQIPSTSLLKDGVSEAAQIYCELVR-LGAP--MRVIDI 226 (559)
T ss_pred ----------HHHHHH-HhCCCCCceEEEEEeCCCCCCCHHHHHHHHHHHHHHHHHHHH-cCCC--CcEEEe
Confidence 788877 5677886 9999887653211122233445566666777775 4543 444444
No 48
>PRK05354 arginine decarboxylase; Provisional
Probab=96.75 E-value=0.02 Score=55.70 Aligned_cols=106 Identities=14% Similarity=0.032 Sum_probs=75.2
Q ss_pred cEEEEeccHHHHHHHHHHHHhcCCCCCceEEEEEeC-----------CCCCccCCCCccchhhhhhhhccCCCCCcccCC
Q psy2326 31 EYIETIHDTRLATQVNNAWAKHQPDKKLKVFCQINT-----------SGEENKHGAHPEHAEALVSHVINSCPNLEFTDK 99 (181)
Q Consensus 31 ~~I~sVDs~~lA~~L~~~~~~~~~~~~l~VliQVN~-----------s~E~~K~Gv~p~~~~~~~~~~~~~~~~~~~~~~ 99 (181)
.++-.|||..=.+.|.+.+.+.+. +.+|.|-||. +|+.+|+|++++++.
T Consensus 172 ~v~ivIDs~~EL~~I~~~a~~~~~--~p~IglRi~~~~~~~g~~~~tgG~~SKFGl~~~ei~------------------ 231 (634)
T PRK05354 172 KVFIVIEKLSELELILEEAKELGV--KPRLGVRARLASQGSGKWQSSGGEKSKFGLSATEVL------------------ 231 (634)
T ss_pred CEEEEECCHHHHHHHHHHHHhcCC--CCeEEEEEecCCCCCCCcccCCCCCCCCCCCHHHHH------------------
Confidence 467899999999999999988776 6788887765 467889999999988
Q ss_pred CCCCchhHHHHHHHHHhhCCCc-eEeeeeecCCCC-CCCCCCccHHHHHHHHHHHHHHHhcCCCCCCCEEeeC
Q psy2326 100 HGAHPEHAEALVSHVINSCPNL-EFTGLMTIGKYG-YDTKHGPNPDFLELAKCRKDVCKKLNLNESNVELSMG 170 (181)
Q Consensus 100 ~~~~~~~~~~l~~~i~~~~p~L-~l~GLMTi~~~~-~d~~~~~~~~F~~L~~l~~~l~~~~~~~~~~~~LSMG 170 (181)
++++.+ .+.+.+ ++.||=.+-+-. .+ .+......+++.++..++++ .|.+ +..|.+|
T Consensus 232 ---------~~i~~l-k~~~~l~~L~GLHfHiGSQi~d-~~~~~~al~e~~~~~~eL~~-~G~~--l~~LDIG 290 (634)
T PRK05354 232 ---------EAVERL-REAGLLDCLQLLHFHLGSQIAN-IRDIKTAVREAARFYVELRK-LGAP--IQYLDVG 290 (634)
T ss_pred ---------HHHHHH-HhCCCCCceEEEEEeCCCCCCC-HHHHHHHHHHHHHHHHHHHH-cCCC--CCEEEeC
Confidence 788877 467777 699998875532 22 22233445666666777765 3543 4445443
No 49
>TIGR01273 speA arginine decarboxylase, biosynthetic. A distinct biodegradative form is also pyridoxal phosphate-dependent but is not similar in sequence.
Probab=96.66 E-value=0.028 Score=54.67 Aligned_cols=106 Identities=16% Similarity=0.032 Sum_probs=75.0
Q ss_pred cEEEEeccHHHHHHHHHHHHhcCCCCCceEEEEEeC-----------CCCCccCCCCccchhhhhhhhccCCCCCcccCC
Q psy2326 31 EYIETIHDTRLATQVNNAWAKHQPDKKLKVFCQINT-----------SGEENKHGAHPEHAEALVSHVINSCPNLEFTDK 99 (181)
Q Consensus 31 ~~I~sVDs~~lA~~L~~~~~~~~~~~~l~VliQVN~-----------s~E~~K~Gv~p~~~~~~~~~~~~~~~~~~~~~~ 99 (181)
.++-.|||..=.+.|.+.+.+.+. +..|.|-||. ||+.+|+|++++++.
T Consensus 165 ~v~IvIDs~~EL~~I~~~a~~~~~--~~~IglRvnl~~~~~g~~~~tgg~~SKFGl~~~ei~------------------ 224 (624)
T TIGR01273 165 NVFIVIEKLSELDLVIEEAKKLGV--KPKLGLRARLASKGSGKWASSGGEKSKFGLSATQIL------------------ 224 (624)
T ss_pred CeEEEECCHHHHHHHHHHHHhcCC--CceEEEEEecCCCCCCCcccCCCCCCCCCCCHHHHH------------------
Confidence 567899999999999999988876 7788888864 456789999999888
Q ss_pred CCCCchhHHHHHHHHHhhCCCc-eEeeeeecCCCC-CCCCCCccHHHHHHHHHHHHHHHhcCCCCCCCEEeeC
Q psy2326 100 HGAHPEHAEALVSHVINSCPNL-EFTGLMTIGKYG-YDTKHGPNPDFLELAKCRKDVCKKLNLNESNVELSMG 170 (181)
Q Consensus 100 ~~~~~~~~~~l~~~i~~~~p~L-~l~GLMTi~~~~-~d~~~~~~~~F~~L~~l~~~l~~~~~~~~~~~~LSMG 170 (181)
++++.+ .+.+.+ ++.||=.+-+-. .+ .+.....++++.++..++++ .|.+ +..|.+|
T Consensus 225 ---------~~i~~l-k~~~~l~~L~GLHfHiGSQi~d-~~~~~~ai~~~~~i~~eL~~-~G~~--l~~LDIG 283 (624)
T TIGR01273 225 ---------EVVRLL-EQNGLLDCLKLLHFHIGSQISN-IDDVKKGVREAARFYCELRK-LGAK--ITYVDVG 283 (624)
T ss_pred ---------HHHHHH-HhcCCCCceEEEEEeCCCCCCC-HHHHHHHHHHHHHHHHHHHH-cCCC--CCEEEeC
Confidence 778777 456666 489998775422 22 22233456667777777775 4543 4445444
No 50
>cd06831 PLPDE_III_ODC_like_AZI Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Ornithine Decarboxylase-like Antizyme Inhibitor. Antizyme inhibitor (AZI) is homologous to the fold type III PLP-dependent enzyme ODC but does not retain any decarboxylase activity. Like ODC, AZI is presumed to exist as a homodimer. Antizyme is a regulatory protein that binds directly to the ODC monomer to block its active site, leading to its degradation by the 26S proteasome. AZI binds to Antizyme with a higher affinity than ODC, preventing the formation of the Antizyme-ODC complex. Thus, AZI blocks the ability of Antizyme to promote ODC degradation, which leads to increased ODC enzymatic activity and polyamine levels. AZI also prevents the degradation of other proteins regulated by Antizyme, such as cyclin D1.
Probab=96.09 E-value=0.045 Score=49.89 Aligned_cols=122 Identities=11% Similarity=0.117 Sum_probs=74.2
Q ss_pred eeeeeccccccc-HHhhhcCCCccEEEEeccHHHHHHHHHHHHhcCCCCCceEEEEEeCCCC------CccCCCCccchh
Q psy2326 9 RWHFIGHLQSNK-VPKVIKVPNLEYIETIHDTRLATQVNNAWAKHQPDKKLKVFCQINTSGE------ENKHGAHPEHAE 81 (181)
Q Consensus 9 ~WHfIG~LQsNK-vk~l~~~~~~~~I~sVDs~~lA~~L~~~~~~~~~~~~l~VliQVN~s~E------~~K~Gv~p~~~~ 81 (181)
+=.|-|+..+.+ ++..++. .+. +-++||..-.++|.+.+ + ..+|+|-||.... .+|+|++++++.
T Consensus 82 ~Iif~gp~K~~~~l~~a~~~-Gv~-~i~vDS~~El~~i~~~~----~--~~~v~lRi~~~~~~~~~~~~~KFGi~~~~~~ 153 (394)
T cd06831 82 NIIYTNPCKQASQIKYAAKV-GVN-IMTCDNEIELKKIARNH----P--NAKLLLHIATEDNIGGEEMNMKFGTTLKNCR 153 (394)
T ss_pred CEEEeCCCCCHHHHHHHHHC-CCC-EEEECCHHHHHHHHHhC----C--CCcEEEEEeccCCCCCCccCCCCCCCHHHHH
Confidence 346778877766 4444442 333 34899999999998754 2 3567877776422 269999999888
Q ss_pred hhhhhhccCCCCCcccCCCCCCchhHHHHHHHHHhhCCCceEeeeeecCCCCCCCCCCccHHHHHHHHHHHHHHHhcCCC
Q psy2326 82 ALVSHVINSCPNLEFTDKHGAHPEHAEALVSHVINSCPNLEFTGLMTIGKYGYDTKHGPNPDFLELAKCRKDVCKKLNLN 161 (181)
Q Consensus 82 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~i~~~~p~L~l~GLMTi~~~~~d~~~~~~~~F~~L~~l~~~l~~~~~~~ 161 (181)
++.+.+. + .+|++.|+=.+-+-.....+.-....+..+.+.+.++ .+|.+
T Consensus 154 ---------------------------~~l~~~~-~-~~l~~~Gih~HiGS~~~~~~~~~~a~~~~~~~~~~~~-~~g~~ 203 (394)
T cd06831 154 ---------------------------HLLECAK-E-LDVQIVGVKFHVSSSCKEYQTYVHALSDARCVFDMAE-EFGFK 203 (394)
T ss_pred ---------------------------HHHHHHH-H-CCCeEEEEEEECCCCCCCHHHHHHHHHHHHHHHHHHH-HCCCC
Confidence 7787773 4 4899999998865322101111112222344444443 35543
Q ss_pred CCCCEEeeC
Q psy2326 162 ESNVELSMG 170 (181)
Q Consensus 162 ~~~~~LSMG 170 (181)
+..|.+|
T Consensus 204 --l~~ldiG 210 (394)
T cd06831 204 --MNMLDIG 210 (394)
T ss_pred --CCEEEeC
Confidence 4566655
No 51
>TIGR01047 nspC carboxynorspermidine decarboxylase. This protein is related to diaminopimelate decarboxylase. It is the last enzyme in norspermidine biosynthesis by an unusual pathway shown in Vibrio alginolyticus.
Probab=95.87 E-value=0.12 Score=46.79 Aligned_cols=66 Identities=18% Similarity=0.214 Sum_probs=48.2
Q ss_pred eeeccccccc-HHhhhcCCCccEEEEeccHHHHHHHHHHHHhcCCCCCceEEEEEeCC------------CCCccCCCCc
Q psy2326 11 HFIGHLQSNK-VPKVIKVPNLEYIETIHDTRLATQVNNAWAKHQPDKKLKVFCQINTS------------GEENKHGAHP 77 (181)
Q Consensus 11 HfIG~LQsNK-vk~l~~~~~~~~I~sVDs~~lA~~L~~~~~~~~~~~~l~VliQVN~s------------~E~~K~Gv~p 77 (181)
+|-|+-.+.. ++.+++ + -.+-+|||..-.++|++.+.+.++ ..+|+|-||.+ +..+|+|+++
T Consensus 74 i~~~~~k~~~el~~a~~--~-g~~i~idS~~el~~l~~~a~~~~~--~~~i~lRinp~~~~~~~~~~~~~~~~sKFGi~~ 148 (380)
T TIGR01047 74 HVYSPAYSEEDVPEIIP--L-ADHIIFNSLAQWARYRHLVEGKNS--AVKLGLRINPEYSEVGTDLYNPCGQFSRLGVQA 148 (380)
T ss_pred EEECCCCCHHHHHHHHH--c-CCEEEECCHHHHHHHHHHHHhcCC--CceEEEEECCCCCCCCcccccCCCCCCCCCCCH
Confidence 4557766544 333433 2 247899999999999998877665 67999999974 3468999999
Q ss_pred cchh
Q psy2326 78 EHAE 81 (181)
Q Consensus 78 ~~~~ 81 (181)
+++.
T Consensus 149 ~~~~ 152 (380)
T TIGR01047 149 DHFE 152 (380)
T ss_pred HHHh
Confidence 8776
No 52
>cd06840 PLPDE_III_Bif_AspK_DapDC Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Bifunctional Aspartate Kinase/Diaminopimelate Decarboxylase. Bifunctional aspartate kinase/diaminopimelate decarboxylase (AspK/DapDC, EC 4.1.1.20/EC 2.7.2.4) typically exists in bacteria. These proteins contain an N-terminal AspK region and a C-terminal DapDC region, which contains a PLP-binding TIM-barrel domain followed by beta-sandwich domain, characteristic of fold type III PLP-dependent enzymes. Members of this subfamily have not been fully characterized. Based on their sequence, these proteins may catalyze both reactions catalyzed by AspK and DapDC. AspK catalyzes the phosphorylation of L-aspartate to produce 4-phospho-L-aspartate while DapDC participates in the last step of lysine biosynthesis, the conversion of meso-2,6-diaminoheptanedioate to L-lysine.
Probab=95.47 E-value=0.28 Score=43.98 Aligned_cols=117 Identities=12% Similarity=0.224 Sum_probs=74.6
Q ss_pred eeeeeccccccc-HHhhhcCCCccEEEEeccHHHHHHHHHHHHhcCCCCCceEEEEEeCC------------CCCccCCC
Q psy2326 9 RWHFIGHLQSNK-VPKVIKVPNLEYIETIHDTRLATQVNNAWAKHQPDKKLKVFCQINTS------------GEENKHGA 75 (181)
Q Consensus 9 ~WHfIG~LQsNK-vk~l~~~~~~~~I~sVDs~~lA~~L~~~~~~~~~~~~l~VliQVN~s------------~E~~K~Gv 75 (181)
+--|-|+..+.. ++..++. .+ .| ++||+.-.++|.+.+. ..+|++-||.+ +..+|+|+
T Consensus 83 ~Iif~gp~K~~~~l~~a~~~-gv-~i-~~Ds~~El~~i~~~~~------~~~v~lRi~~~~~~~~~~~~~~~~~~skFG~ 153 (368)
T cd06840 83 RVLFTPNFAARSEYEQALEL-GV-NV-TVDNLHPLREWPELFR------GREVILRIDPGQGEGHHKHVRTGGPESKFGL 153 (368)
T ss_pred eEEEcCCCCCHHHHHHHHHC-CC-EE-EECCHHHHHHHHHhcc------cCCEEEEECCCCCCCCCCceecCCCCCCCCC
Confidence 345667777654 5665553 34 34 9999998888876643 35788888874 34589999
Q ss_pred CccchhhhhhhhccCCCCCcccCCCCCCchhHHHHHHHHHhhCCCceEeeeeecCCCCCCCCCCccHHHHHHHHHHHHHH
Q psy2326 76 HPEHAEALVSHVINSCPNLEFTDKHGAHPEHAEALVSHVINSCPNLEFTGLMTIGKYGYDTKHGPNPDFLELAKCRKDVC 155 (181)
Q Consensus 76 ~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~i~~~~p~L~l~GLMTi~~~~~d~~~~~~~~F~~L~~l~~~l~ 155 (181)
+++++. ++++.+ .. .++++.|+=.+-+-... .-..|.++.+...++.
T Consensus 154 ~~~~~~---------------------------~~l~~~-~~-~~l~l~GlhfH~GS~~~----~~~~~~~~~~~~~~l~ 200 (368)
T cd06840 154 DVDELD---------------------------EARDLA-KK-AGIIVIGLHAHSGSGVE----DTDHWARHGDYLASLA 200 (368)
T ss_pred CHHHHH---------------------------HHHHHH-Hh-CCCcEEEEEEECCCCCC----CHHHHHHHHHHHHHHH
Confidence 999988 777766 33 48999999887653321 1234555555555555
Q ss_pred HhcCCCCCCCEEeeC
Q psy2326 156 KKLNLNESNVELSMG 170 (181)
Q Consensus 156 ~~~~~~~~~~~LSMG 170 (181)
+.+. .+..|.+|
T Consensus 201 ~~~~---~~~~idiG 212 (368)
T cd06840 201 RHFP---AVRILNVG 212 (368)
T ss_pred HhcC---CCCEEEec
Confidence 4331 24455554
No 53
>PRK08961 bifunctional aspartate kinase/diaminopimelate decarboxylase protein; Provisional
Probab=95.35 E-value=0.23 Score=49.63 Aligned_cols=116 Identities=13% Similarity=0.220 Sum_probs=77.0
Q ss_pred eeeeccccccc-HHhhhcCCCccEEEEeccHHHHHHHHHHHHhcCCCCCceEEEEEeCC------------CCCccCCCC
Q psy2326 10 WHFIGHLQSNK-VPKVIKVPNLEYIETIHDTRLATQVNNAWAKHQPDKKLKVFCQINTS------------GEENKHGAH 76 (181)
Q Consensus 10 WHfIG~LQsNK-vk~l~~~~~~~~I~sVDs~~lA~~L~~~~~~~~~~~~l~VliQVN~s------------~E~~K~Gv~ 76 (181)
-.|-|+..+.. ++..++ ..+.-++||..-.+.|.+.+.. .+|+|-||.+ +..+|+|++
T Consensus 575 Ii~~gp~K~~~~l~~A~~---~gv~i~vDS~~EL~~i~~~~~~------~~v~lRinp~~~~~~~~~~~~~~~~sKFGi~ 645 (861)
T PRK08961 575 VLFTPNFAPRAEYEAAFA---LGVTVTLDNVEPLRNWPELFRG------REVWLRIDPGHGDGHHEKVRTGGKESKFGLS 645 (861)
T ss_pred EEECCCCCCHHHHHHHHH---CCCEEEECCHHHHHHHHHhCCC------CcEEEEECCCCCCCCCcccccCCCCCCCCCC
Confidence 35567777644 444444 2334589999999988876532 3567777753 456899999
Q ss_pred ccchhhhhhhhccCCCCCcccCCCCCCchhHHHHHHHHHhhCCCceEeeeeecCCCCCCCCCCccHHHHHHHHHHHHHHH
Q psy2326 77 PEHAEALVSHVINSCPNLEFTDKHGAHPEHAEALVSHVINSCPNLEFTGLMTIGKYGYDTKHGPNPDFLELAKCRKDVCK 156 (181)
Q Consensus 77 p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~i~~~~p~L~l~GLMTi~~~~~d~~~~~~~~F~~L~~l~~~l~~ 156 (181)
++++. ++++.+ .. .++++.||..+-+-... .-..|.++.+...++.+
T Consensus 646 ~~~~~---------------------------~~~~~~-~~-~~l~l~GlH~H~GS~~~----~~~~~~~~~~~~~~l~~ 692 (861)
T PRK08961 646 QTRID---------------------------EFVDLA-KT-LGITVVGLHAHLGSGIE----TGEHWRRMADELASFAR 692 (861)
T ss_pred HHHHH---------------------------HHHHHH-Hh-CCCCEEEEEEecCCCCC----CHHHHHHHHHHHHHHHH
Confidence 99888 777766 33 58999999999874322 11347776666666665
Q ss_pred hcCCCCCCCEEeeC
Q psy2326 157 KLNLNESNVELSMG 170 (181)
Q Consensus 157 ~~~~~~~~~~LSMG 170 (181)
.+. ....|.+|
T Consensus 693 ~~~---~~~~iDiG 703 (861)
T PRK08961 693 RFP---DVRTIDLG 703 (861)
T ss_pred hcc---CCcEEEec
Confidence 542 35677776
No 54
>KOG0622|consensus
Probab=90.87 E-value=2.6 Score=39.82 Aligned_cols=119 Identities=13% Similarity=0.148 Sum_probs=74.0
Q ss_pred eeccccccc-HHhhhcCCCccEEEEeccHHHHHHHHHHHHhcCCCCCceEEEEEeCCCC------CccCCCCccchhhhh
Q psy2326 12 FIGHLQSNK-VPKVIKVPNLEYIETIHDTRLATQVNNAWAKHQPDKKLKVFCQINTSGE------ENKHGAHPEHAEALV 84 (181)
Q Consensus 12 fIG~LQsNK-vk~l~~~~~~~~I~sVDs~~lA~~L~~~~~~~~~~~~l~VliQVN~s~E------~~K~Gv~p~~~~~~~ 84 (181)
|.++..+-+ +|+.+. +=-.+-|+|+.+-..++.+. .+ .-++++-|++... ..|+|++++++.
T Consensus 128 yanpcK~~s~IkyAa~--~gV~~~tfDne~el~kv~~~----hP--~a~llLrIatdds~a~~~l~~KFG~~~~~~~--- 196 (448)
T KOG0622|consen 128 YANPCKQVSQIKYAAK--HGVSVMTFDNEEELEKVAKS----HP--NANLLLRIATDDSTATCRLNLKFGCSLDNCR--- 196 (448)
T ss_pred ecCCCccHHHHHHHHH--cCCeEEeecCHHHHHHHHHh----CC--CceEEEEEccCCCcccccccCccCCCHHHHH---
Confidence 455554433 555554 22345679998877666553 33 4678888887755 568999998887
Q ss_pred hhhccCCCCCcccCCCCCCchhHHHHHHHHHhhCCCceEeeeeecCCCCCCCCCCccHHHHHHHHHHHHHHHhcCCCCCC
Q psy2326 85 SHVINSCPNLEFTDKHGAHPEHAEALVSHVINSCPNLEFTGLMTIGKYGYDTKHGPNPDFLELAKCRKDVCKKLNLNESN 164 (181)
Q Consensus 85 ~~~~~~~~~~~~~~~~~~~~~~~~~l~~~i~~~~p~L~l~GLMTi~~~~~d~~~~~~~~F~~L~~l~~~l~~~~~~~~~~ 164 (181)
.|.+.+ .++ +|++.|+-.+=+-+-...+.-+..-...+.+++.-. ++|.. +
T Consensus 197 ------------------------~lLd~a-k~l-~lnvvGvsfHvGSgc~d~~~y~~Ai~dAr~vfd~g~-e~Gf~--m 247 (448)
T KOG0622|consen 197 ------------------------HLLDMA-KEL-ELNVVGVSFHVGSGCTDLQAYRDAISDARNVFDMGA-ELGFE--M 247 (448)
T ss_pred ------------------------HHHHHH-HHc-CceEEEEEEEecCCCCCHHHHHHHHHHHHHHHHHHH-hcCce--E
Confidence 677776 344 899999988755332212222334456666677665 56765 4
Q ss_pred CEEeeC
Q psy2326 165 VELSMG 170 (181)
Q Consensus 165 ~~LSMG 170 (181)
..|-+|
T Consensus 248 ~~LdiG 253 (448)
T KOG0622|consen 248 DILDIG 253 (448)
T ss_pred EEeecC
Confidence 455544
No 55
>cd06829 PLPDE_III_CANSDC Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Carboxynorspermidine Decarboxylase. Carboxynorspermidine decarboxylase (CANSDC) catalyzes the decarboxylation of carboxynorspermidine, the last step in the biosynthesis of norspermidine. It is homologous to eukaryotic ornithine decarboxylase (ODC) and diaminopimelate decarboxylase (DapDC), which are fold type III PLP-dependent enzymes that contain an N-terminal PLP-binding TIM-barrel domain and a C-terminal beta-sandwich domain, similar to bacterial alanine racemases. Based on this similarity, CANSDC may require homodimer formation and the presence of the PLP cofactor for its catalytic activity.
Probab=90.03 E-value=2 Score=38.17 Aligned_cols=66 Identities=9% Similarity=0.062 Sum_probs=45.8
Q ss_pred eeeeeccccccc-HHhhhcCCCccEEEEeccHHHHHHHHHHHHhcCCCCCceEEEEEeCCC------------CCccCCC
Q psy2326 9 RWHFIGHLQSNK-VPKVIKVPNLEYIETIHDTRLATQVNNAWAKHQPDKKLKVFCQINTSG------------EENKHGA 75 (181)
Q Consensus 9 ~WHfIG~LQsNK-vk~l~~~~~~~~I~sVDs~~lA~~L~~~~~~~~~~~~l~VliQVN~s~------------E~~K~Gv 75 (181)
+..+-|+-.+.. ++..++ +. ..-++||..-.++|.+.+.+ . +.+|++-||.+. ..+|+|+
T Consensus 70 ~~i~~~~~k~~~el~~a~~--~~-~~~~~Ds~~EL~~l~~~~~~--~--~~~v~lRvnp~~~~~~~~~~~~~~~~sKFG~ 142 (346)
T cd06829 70 EVHTYSPAYRDDEIDEILR--LA-DHIIFNSLSQLERFKDRAKA--A--GISVGLRINPEYSEVETDLYDPCAPGSRLGV 142 (346)
T ss_pred ceEEECCCCCHHHHHHHHH--cC-CEEEECCHHHHHHHHHHHhc--c--CCeEEEEECCCCCCCCCceecCCCCCCCCCC
Confidence 444457766543 333443 22 36799999999999998865 3 578999998753 3689999
Q ss_pred Cccchh
Q psy2326 76 HPEHAE 81 (181)
Q Consensus 76 ~p~~~~ 81 (181)
+++++.
T Consensus 143 ~~~~~~ 148 (346)
T cd06829 143 TLDELE 148 (346)
T ss_pred ChHHhh
Confidence 988765
No 56
>TIGR00696 wecB_tagA_cpsF bacterial polymer biosynthesis proteins, WecB/TagA/CpsF family. The WecG member of this superfamily, believed to be UDP-N-acetyl-D-mannosaminuronic acid transferase, plays a role in enterobacterial common antigen (eca) synthesis in Escherichia coli. Another family member, the Bacillus subtilis TagA protein, is involved in the biosynthesis of the cell wall polymer poly(glycerol phosphate). The third family member, CpsF, CMP-N-acetylneuraminic acid synthetase has a role in the capsular polysaccharide biosynthesis pathway.
Probab=74.87 E-value=9.6 Score=31.33 Aligned_cols=59 Identities=20% Similarity=0.376 Sum_probs=38.3
Q ss_pred EEEEeccHHHHHHHHHHHHhcCCCCCceEEEEEeCCCCCccCCCCccchhhhhhhhccCCCCCcccCCCCCCchhHHHHH
Q psy2326 32 YIETIHDTRLATQVNNAWAKHQPDKKLKVFCQINTSGEENKHGAHPEHAEALVSHVINSCPNLEFTDKHGAHPEHAEALV 111 (181)
Q Consensus 32 ~I~sVDs~~lA~~L~~~~~~~~~~~~l~VliQVN~s~E~~K~Gv~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~ 111 (181)
..+-|.-..++..|=+.+.+.+ .+|++ + |-.|+.+. .++
T Consensus 27 ~~~Rv~G~dl~~~l~~~~~~~~----~~vfl---l-------G~~~~v~~---------------------------~~~ 65 (177)
T TIGR00696 27 QQSRVAGPDLMEELCQRAGKEK----LPIFL---Y-------GGKPDVLQ---------------------------QLK 65 (177)
T ss_pred CCCccChHHHHHHHHHHHHHcC----CeEEE---E-------CCCHHHHH---------------------------HHH
Confidence 3445556677777766666544 45666 1 33455555 778
Q ss_pred HHHHhhCCCceEeeeeecCCCC
Q psy2326 112 SHVINSCPNLEFTGLMTIGKYG 133 (181)
Q Consensus 112 ~~i~~~~p~L~l~GLMTi~~~~ 133 (181)
+.+.+.+|+|++.|. .|++.
T Consensus 66 ~~l~~~yP~l~i~g~--~g~f~ 85 (177)
T TIGR00696 66 VKLIKEYPKLKIVGA--FGPLE 85 (177)
T ss_pred HHHHHHCCCCEEEEE--CCCCC
Confidence 888788999999985 66653
No 57
>cd06533 Glyco_transf_WecG_TagA The glycosyltransferase WecG/TagA superfamily contains Escherichia coli WecG, Bacillus subtilis TagA and related proteins. E. coli WecG is believed to be a UDP-N-acetyl-D-mannosaminuronic acid transferase, and is involved in enterobacterial common antigen (eca) synthesis. B. subtilis TagA plays a key role in the Wall Teichoic Acid (WTA) biosynthetic pathway, catalyzing the transfer of N-acetylmannosamine to the C4 hydroxyl of a membrane-anchored N-acetylglucosaminyl diphospholipid to make ManNAc-beta-(1,4)-GlcNAc-pp-undecaprenyl. This is the first committed step in this pathway. Also included in this group is Xanthomonas campestris pv. campestris GumM, a glycosyltransferase participating in the biosynthesis of the exopolysaccharide xanthan.
Probab=56.87 E-value=39 Score=27.18 Aligned_cols=55 Identities=25% Similarity=0.363 Sum_probs=39.9
Q ss_pred cEEEEeccHHHHHHHHHHHHhcCCCCCceEEEEEeCCCCCccCCCCccchhhhhhhhccCCCCCcccCCCCCCchhHHHH
Q psy2326 31 EYIETIHDTRLATQVNNAWAKHQPDKKLKVFCQINTSGEENKHGAHPEHAEALVSHVINSCPNLEFTDKHGAHPEHAEAL 110 (181)
Q Consensus 31 ~~I~sVDs~~lA~~L~~~~~~~~~~~~l~VliQVN~s~E~~K~Gv~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l 110 (181)
...+.++...++..|=+.+.+.+ .+|++= |-.++.+. .+
T Consensus 24 ~~~~r~~g~dl~~~ll~~~~~~~----~~v~ll----------G~~~~~~~---------------------------~~ 62 (171)
T cd06533 24 PLPERVTGSDLMPALLELAAQKG----LRVFLL----------GAKPEVLE---------------------------KA 62 (171)
T ss_pred CCCcccCcHHHHHHHHHHHHHcC----CeEEEE----------CCCHHHHH---------------------------HH
Confidence 46788889999988888887655 366661 33455555 77
Q ss_pred HHHHHhhCCCceEeee
Q psy2326 111 VSHVINSCPNLEFTGL 126 (181)
Q Consensus 111 ~~~i~~~~p~L~l~GL 126 (181)
++.+.+.+|++++.|.
T Consensus 63 ~~~l~~~yp~l~i~g~ 78 (171)
T cd06533 63 AERLRARYPGLKIVGY 78 (171)
T ss_pred HHHHHHHCCCcEEEEe
Confidence 7778788999999884
No 58
>COG0386 BtuE Glutathione peroxidase [Posttranslational modification, protein turnover, chaperones]
Probab=56.75 E-value=19 Score=29.97 Aligned_cols=16 Identities=44% Similarity=0.605 Sum_probs=14.5
Q ss_pred eEEEEEeCCCCCccCCCCc
Q psy2326 59 KVFCQINTSGEENKHGAHP 77 (181)
Q Consensus 59 ~VliQVN~s~E~~K~Gv~p 77 (181)
+|++-||| ++|+|+.|
T Consensus 26 kVlLIVNt---ASkCGfTp 41 (162)
T COG0386 26 KVLLIVNT---ASKCGFTP 41 (162)
T ss_pred cEEEEEEc---ccccCCcH
Confidence 58999999 79999998
No 59
>PF03808 Glyco_tran_WecB: Glycosyl transferase WecB/TagA/CpsF family; InterPro: IPR004629 The WecG member of this superfamily, believed to be UDP-N-acetyl-D-mannosaminuronic acid transferase, plays a role in Enterobacterial common antigen (eca) synthesis in Escherichia coli. Another family member, the Bacillus subtilis TagA protein, is involved in the biosynthesis of the cell wall polymer poly(glycerol phosphate). The third family member, CpsF, CMP-N-acetylneuraminic acid synthetase has a role in the capsular polysaccharide biosynthesis pathway.; GO: 0009058 biosynthetic process
Probab=51.10 E-value=57 Score=26.17 Aligned_cols=55 Identities=16% Similarity=0.256 Sum_probs=36.9
Q ss_pred EEEEeccHHHHHHHHHHHHhcCCCCCceEEEEEeCCCCCccCCCCccchhhhhhhhccCCCCCcccCCCCCCchhHHHHH
Q psy2326 32 YIETIHDTRLATQVNNAWAKHQPDKKLKVFCQINTSGEENKHGAHPEHAEALVSHVINSCPNLEFTDKHGAHPEHAEALV 111 (181)
Q Consensus 32 ~I~sVDs~~lA~~L~~~~~~~~~~~~l~VliQVN~s~E~~K~Gv~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~ 111 (181)
+-+.|+...+...|=+.+.+.+. +|++ + |-.++.+. .++
T Consensus 27 ~~~rv~g~dl~~~l~~~~~~~~~----~ifl---l-------G~~~~~~~---------------------------~~~ 65 (172)
T PF03808_consen 27 LPERVTGSDLFPDLLRRAEQRGK----RIFL---L-------GGSEEVLE---------------------------KAA 65 (172)
T ss_pred CCcccCHHHHHHHHHHHHHHcCC----eEEE---E-------eCCHHHHH---------------------------HHH
Confidence 33778888888888887776653 5666 2 22344555 677
Q ss_pred HHHHhhCCCceEeeee
Q psy2326 112 SHVINSCPNLEFTGLM 127 (181)
Q Consensus 112 ~~i~~~~p~L~l~GLM 127 (181)
+.+.+.+|+|++.|..
T Consensus 66 ~~l~~~yP~l~ivg~~ 81 (172)
T PF03808_consen 66 ANLRRRYPGLRIVGYH 81 (172)
T ss_pred HHHHHHCCCeEEEEec
Confidence 7777778888887753
No 60
>cd01841 NnaC_like NnaC (CMP-NeuNAc synthetase) _like subfamily of SGNH_hydrolases, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely resembles two of the three components of typical Ser-His-Asp(Glu) triad from other serine hydrolases. E. coli NnaC appears to be involved in polysaccharide synthesis.
Probab=40.89 E-value=1.6e+02 Score=22.39 Aligned_cols=94 Identities=12% Similarity=0.167 Sum_probs=52.2
Q ss_pred ccHHHHHHHHHHHHhcCCCCCceEEEEEeCCCCCccCCCCccchhhhhhhhccCCCCCcccCCCCCCchhHHHHHHHHHh
Q psy2326 37 HDTRLATQVNNAWAKHQPDKKLKVFCQINTSGEENKHGAHPEHAEALVSHVINSCPNLEFTDKHGAHPEHAEALVSHVIN 116 (181)
Q Consensus 37 Ds~~lA~~L~~~~~~~~~~~~l~VliQVN~s~E~~K~Gv~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~i~~ 116 (181)
.+..+...+.+...... +=-|+|+ .|...-..|.++++.. ..++.+++.+.+
T Consensus 35 t~~~~~~~~~~~~~~~~---pd~v~i~--~G~ND~~~~~~~~~~~-----------------------~~~~~l~~~~~~ 86 (174)
T cd01841 35 SSRQYLEHIEPQLIQKN---PSKVFLF--LGTNDIGKEVSSNQFI-----------------------KWYRDIIEQIRE 86 (174)
T ss_pred cHHHHHHHHHHHHHhcC---CCEEEEE--eccccCCCCCCHHHHH-----------------------HHHHHHHHHHHH
Confidence 34445555644444332 3234444 4444556677777765 244578888766
Q ss_pred hCCCceEeeeeecCCCCCCC--CCCccHHHHHHHHHHHHHHHhcC
Q psy2326 117 SCPNLEFTGLMTIGKYGYDT--KHGPNPDFLELAKCRKDVCKKLN 159 (181)
Q Consensus 117 ~~p~L~l~GLMTi~~~~~d~--~~~~~~~F~~L~~l~~~l~~~~~ 159 (181)
..|+.++. +++++|..... ....++.+.++.+...+++++++
T Consensus 87 ~~p~~~vi-~~~~~p~~~~~~~~~~~~~~~~~~n~~l~~~a~~~~ 130 (174)
T cd01841 87 EFPNTKIY-LLSVLPVLEEDEIKTRSNTRIQRLNDAIKELAPELG 130 (174)
T ss_pred HCCCCEEE-EEeeCCcCcccccccCCHHHHHHHHHHHHHHHHHCC
Confidence 67876654 35666654321 12335566777777777776654
No 61
>TIGR02919 accessory Sec system glycosyltransferase GtfB. Members of this protein family are found only in Gram-positive bacteria of the Firmicutes lineage, including several species of Staphylococcus, Streptococcus, and Lactobacillus.
Probab=37.77 E-value=34 Score=32.00 Aligned_cols=56 Identities=18% Similarity=0.307 Sum_probs=43.9
Q ss_pred CCCCCceeeeeccccc--ccHHhhhcCCCccEEEEeccHHHHHHHHHHHHhcCCCCCceEEEEEeCCCC
Q psy2326 3 SKCKDIRWHFIGHLQS--NKVPKVIKVPNLEYIETIHDTRLATQVNNAWAKHQPDKKLKVFCQINTSGE 69 (181)
Q Consensus 3 ~~~~di~WHfIG~LQs--NKvk~l~~~~~~~~I~sVDs~~lA~~L~~~~~~~~~~~~l~VliQVN~s~E 69 (181)
+++|++.+|+ |..-. +|++++.+.+++.+...+....+.+.++ ..++++-+|.++|
T Consensus 302 ~~lPd~~f~I-ga~te~s~kL~~L~~y~nvvly~~~~~~~l~~ly~----------~~dlyLdin~~e~ 359 (438)
T TIGR02919 302 QALPDYHFHI-AALTEMSSKLMSLDKYDNVKLYPNITTQKIQELYQ----------TCDIYLDINHGNE 359 (438)
T ss_pred HhCCCcEEEE-EecCcccHHHHHHHhcCCcEEECCcChHHHHHHHH----------hccEEEEcccccc
Confidence 5789999998 87766 9998888777888888877766665555 3578999998854
No 62
>PF12516 DUF3719: Protein of unknown function (DUF3719); InterPro: IPR022194 This domain family is found in eukaryotes, and is approximately 70 amino acids in length. There is a conserved HLR sequence motif. There are two completely conserved residues (W and H) that may be functionally important.
Probab=35.02 E-value=65 Score=22.90 Aligned_cols=25 Identities=16% Similarity=0.086 Sum_probs=18.3
Q ss_pred HHHHHHHhhCCCceEeeeeecCCCC
Q psy2326 109 ALVSHVINSCPNLEFTGLMTIGKYG 133 (181)
Q Consensus 109 ~l~~~i~~~~p~L~l~GLMTi~~~~ 133 (181)
+=+..-...+||||+.|--.+.|.+
T Consensus 16 ~Ec~eW~~~fpHLRv~G~q~~~p~d 40 (68)
T PF12516_consen 16 EECQEWTSRFPHLRVLGKQIIIPKD 40 (68)
T ss_pred HHHHHHHHhCCeEEEecccccCccc
Confidence 4444444679999999998887744
No 63
>cd01833 XynB_like SGNH_hydrolase subfamily, similar to Ruminococcus flavefaciens XynB. Most likely a secreted hydrolase with xylanase activity. SGNH hydrolases are a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely resembles the Ser-His-Asp(Glu) triad found in other serine hydrolases.
Probab=34.03 E-value=2e+02 Score=21.46 Aligned_cols=71 Identities=14% Similarity=0.190 Sum_probs=40.5
Q ss_pred eEEEEEeCCCCCccCCCCccchhhhhhhhccCCCCCcccCCCCCCchhHHHHHHHHHhhCCCceEeeeeecCCCCCCCCC
Q psy2326 59 KVFCQINTSGEENKHGAHPEHAEALVSHVINSCPNLEFTDKHGAHPEHAEALVSHVINSCPNLEFTGLMTIGKYGYDTKH 138 (181)
Q Consensus 59 ~VliQVN~s~E~~K~Gv~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~i~~~~p~L~l~GLMTi~~~~~d~~~ 138 (181)
++++ |.+|......|.++++.. +.++.+++.+...+|+..+. +++++|.... .
T Consensus 42 d~vv-i~~G~ND~~~~~~~~~~~-----------------------~~~~~~i~~i~~~~p~~~ii-~~~~~p~~~~-~- 94 (157)
T cd01833 42 DVVL-LHLGTNDLVLNRDPDTAP-----------------------DRLRALIDQMRAANPDVKII-VATLIPTTDA-S- 94 (157)
T ss_pred CEEE-EeccCcccccCCCHHHHH-----------------------HHHHHHHHHHHHhCCCeEEE-EEeCCCCCCc-c-
Confidence 4444 667766777777776655 34447888887778887764 5566654432 1
Q ss_pred CccHHHHHHHHHHHHHHHh
Q psy2326 139 GPNPDFLELAKCRKDVCKK 157 (181)
Q Consensus 139 ~~~~~F~~L~~l~~~l~~~ 157 (181)
.++......+...+++++
T Consensus 95 -~~~~~~~~n~~l~~~~~~ 112 (157)
T cd01833 95 -GNARIAEYNAAIPGVVAD 112 (157)
T ss_pred -hhHHHHHHHHHHHHHHHH
Confidence 133344444444444433
No 64
>cd02877 GH18_hevamine_XipI_class_III This conserved domain family includes xylanase inhibitor Xip-I, and the class III plant chitinases such as hevamine, concanavalin B, and PPL2, all of which have a glycosyl hydrolase family 18 (GH18) domain. Hevamine is a class III endochitinase that hydrolyzes the linear polysaccharide chains of chitin and peptidoglycan and is important for defense against pathogenic bacteria and fungi. PPL2 (Parkia platycephala lectin 2) is a class III chitinase from Parkia platycephala seeds that hydrolyzes beta(1-4) glycosidic bonds linking 2-acetoamido-2-deoxy-beta-D-glucopyranose units in chitin.
Probab=29.91 E-value=73 Score=28.01 Aligned_cols=44 Identities=32% Similarity=0.461 Sum_probs=31.0
Q ss_pred ceEEEEEeCCCCCccCC-CCccchhhhhhhhccCCCCCcccCCCCCCchhHHHHHHHHHhhCCCceEeeeeecC
Q psy2326 58 LKVFCQINTSGEENKHG-AHPEHAEALVSHVINSCPNLEFTDKHGAHPEHAEALVSHVINSCPNLEFTGLMTIG 130 (181)
Q Consensus 58 l~VliQVN~s~E~~K~G-v~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~i~~~~p~L~l~GLMTi~ 130 (181)
-+|+|=+-.+.+...+| |+|+++. ..+...+...| .|.|+|+=-
T Consensus 220 ~kv~lGlpas~~aa~~Gyv~p~~l~---------------------------~~v~~~~~~~~--~fGGvM~Wd 264 (280)
T cd02877 220 AKVFLGLPASPEAAGSGYVDPSELA---------------------------SLVLPVKQKSP--NFGGVMLWD 264 (280)
T ss_pred ceEEEecccCCCCCCCCccCHHHHH---------------------------HHHHHHhhcCC--CCcEEEEEh
Confidence 57888888876665566 4677666 56665545555 899999964
No 65
>PLN02489 homocysteine S-methyltransferase
Probab=29.47 E-value=2.6e+02 Score=25.12 Aligned_cols=79 Identities=15% Similarity=0.183 Sum_probs=54.6
Q ss_pred ccEEEEeccHHHHHHHHHHHHhcCCCCCceEEEEEeCCCC-CccCCCCccchhhhhhhhccCCCC-CcccCCCCCCchhH
Q psy2326 30 LEYIETIHDTRLATQVNNAWAKHQPDKKLKVFCQINTSGE-ENKHGAHPEHAEALVSHVINSCPN-LEFTDKHGAHPEHA 107 (181)
Q Consensus 30 ~~~I~sVDs~~lA~~L~~~~~~~~~~~~l~VliQVN~s~E-~~K~Gv~p~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~ 107 (181)
+-+++|+-+++=++.+-+++++.+. .++|+|.+.+..+ ...+|.+++++...+. .+.. .-+---|. +|..+
T Consensus 183 ~i~~ET~~~l~E~~a~~~~~~~~~~--~~p~~iS~t~~~~~~l~~G~~~~~~~~~~~----~~~~~~~iGiNC~-~p~~~ 255 (335)
T PLN02489 183 LIAFETIPNKLEAQAYVELLEEENI--KIPAWISFNSKDGVNVVSGDSLLECASIAD----SCKKVVAVGINCT-PPRFI 255 (335)
T ss_pred EEEEeccCChHHHHHHHHHHHHcCC--CCeEEEEEEeCCCCccCCCCcHHHHHHHHH----hcCCceEEEecCC-CHHHH
Confidence 3457999999999999888887664 5789999988433 3368888777764432 1211 12333454 88888
Q ss_pred HHHHHHHH
Q psy2326 108 EALVSHVI 115 (181)
Q Consensus 108 ~~l~~~i~ 115 (181)
..+++.+.
T Consensus 256 ~~~l~~l~ 263 (335)
T PLN02489 256 HGLILSIR 263 (335)
T ss_pred HHHHHHHH
Confidence 88888874
No 66
>cd01828 sialate_O-acetylesterase_like2 sialate_O-acetylesterase_like subfamily of the SGNH-hydrolases, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely resembles the Ser-His-Asp(Glu) triad found in other serine hydrolases.
Probab=25.78 E-value=3e+02 Score=20.84 Aligned_cols=91 Identities=15% Similarity=0.187 Sum_probs=47.3
Q ss_pred cHHHHHHHHHHHHhcCCCCCceEEEEEeCCCCCccCCCCccchhhhhhhhccCCCCCcccCCCCCCchhHHHHHHHHHhh
Q psy2326 38 DTRLATQVNNAWAKHQPDKKLKVFCQINTSGEENKHGAHPEHAEALVSHVINSCPNLEFTDKHGAHPEHAEALVSHVINS 117 (181)
Q Consensus 38 s~~lA~~L~~~~~~~~~~~~l~VliQVN~s~E~~K~Gv~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~i~~~ 117 (181)
+..+.+.|.+.. ..+ + ++++ |..|.-..+.|.++++.. ..++++++.+.+.
T Consensus 34 ~~~~~~~l~~~~--~~~--p-d~vv-l~~G~ND~~~~~~~~~~~-----------------------~~l~~li~~~~~~ 84 (169)
T cd01828 34 TRGLLARLDEDV--ALQ--P-KAIF-IMIGINDLAQGTSDEDIV-----------------------ANYRTILEKLRKH 84 (169)
T ss_pred HHHHHHHHHHHh--ccC--C-CEEE-EEeeccCCCCCCCHHHHH-----------------------HHHHHHHHHHHHH
Confidence 344555665544 222 3 3333 455555667788876665 2344778877655
Q ss_pred CCCceEeeeeecCCCCCCCCCCccHHHHHHHHHHHHHHHhcC
Q psy2326 118 CPNLEFTGLMTIGKYGYDTKHGPNPDFLELAKCRKDVCKKLN 159 (181)
Q Consensus 118 ~p~L~l~GLMTi~~~~~d~~~~~~~~F~~L~~l~~~l~~~~~ 159 (181)
.|+.++. +++++|.... .........++.+.-.+++++.+
T Consensus 85 ~~~~~vi-~~~~~p~~~~-~~~~~~~~~~~n~~l~~~a~~~~ 124 (169)
T cd01828 85 FPNIKIV-VQSILPVGEL-KSIPNEQIEELNRQLAQLAQQEG 124 (169)
T ss_pred CCCCeEE-EEecCCcCcc-CcCCHHHHHHHHHHHHHHHHHCC
Confidence 5776654 2344443311 11234445555555555655544
No 67
>COG1419 FlhF Flagellar GTP-binding protein [Cell motility and secretion]
Probab=23.66 E-value=1.5e+02 Score=28.06 Aligned_cols=58 Identities=19% Similarity=0.222 Sum_probs=37.3
Q ss_pred EEEEeCCCCCccCCCCccchhhhhhhh--ccCCCCCcccCCCCCCchhHHHHHHHHHhhCCCceEeee
Q psy2326 61 FCQINTSGEENKHGAHPEHAEALVSHV--INSCPNLEFTDKHGAHPEHAEALVSHVINSCPNLEFTGL 126 (181)
Q Consensus 61 liQVN~s~E~~K~Gv~p~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~l~~~i~~~~p~L~l~GL 126 (181)
+|=|+|.|-.++-....+++.++++++ |.+|=-++-|++. +-..+|..++..+.+.|+
T Consensus 284 ~ILVDTaGrs~~D~~~i~el~~~~~~~~~i~~~Lvlsat~K~--------~dlkei~~~f~~~~i~~~ 343 (407)
T COG1419 284 VILVDTAGRSQYDKEKIEELKELIDVSHSIEVYLVLSATTKY--------EDLKEIIKQFSLFPIDGL 343 (407)
T ss_pred EEEEeCCCCCccCHHHHHHHHHHHhccccceEEEEEecCcch--------HHHHHHHHHhccCCccee
Confidence 456999888887777777887776554 3333333444443 445555577877888776
No 68
>cd00231 ZipA ZipA C-terminal domain. ZipA, a membrane-anchored protein, is one of at least nine essential gene products necessary for assembly of the septal ring which mediates cell division in E.coli. ZipA and FtsA directly bind FtsZ, a homolog of eukaryotic tubulins, at the prospective division site, followed by the sequential addition of FtsK, FtsQ, FtsL, FtsW, FtsI, and FtsN. ZipA contains three domains: a short N-terminal membrane-anchored domain, a central P/Q domain that is rich in proline and glutamine and a C-terminal domain, which comprises almost half the protein.
Probab=22.21 E-value=1.6e+02 Score=23.18 Aligned_cols=37 Identities=19% Similarity=0.345 Sum_probs=30.0
Q ss_pred hCCCceEeeeeecCCCCCCCCCCccHHHHHHHHHHHHHHHhcCC
Q psy2326 117 SCPNLEFTGLMTIGKYGYDTKHGPNPDFLELAKCRKDVCKKLNL 160 (181)
Q Consensus 117 ~~p~L~l~GLMTi~~~~~d~~~~~~~~F~~L~~l~~~l~~~~~~ 160 (181)
.+|+|.| +|.+|.... ....|..|-++.+.|++.++.
T Consensus 72 ~t~Gvtl--fm~lP~~~~-----~~~~F~~Ml~~A~~lA~~LgG 108 (130)
T cd00231 72 STPGISF--FMQLPSPGD-----ALQNFKLMLQAAQRIADDLGG 108 (130)
T ss_pred ccCeEEE--EEECCCCCc-----HHHHHHHHHHHHHHHHHHcCC
Confidence 5899999 999986542 345799999999999988764
No 69
>PRK03692 putative UDP-N-acetyl-D-mannosaminuronic acid transferase; Provisional
Probab=21.48 E-value=2.6e+02 Score=24.13 Aligned_cols=30 Identities=20% Similarity=0.334 Sum_probs=20.8
Q ss_pred CCCchhHHHHHHHHHhhCCCceEeeeeecCCC
Q psy2326 101 GAHPEHAEALVSHVINSCPNLEFTGLMTIGKY 132 (181)
Q Consensus 101 ~~~~~~~~~l~~~i~~~~p~L~l~GLMTi~~~ 132 (181)
|+.|.-++.+++.+...+ ++++.|.. .|++
T Consensus 112 G~~~~v~~~a~~~l~~~y-~l~i~g~~-~Gyf 141 (243)
T PRK03692 112 GGKPEVLAQTEAKLRTQW-NVNIVGSQ-DGYF 141 (243)
T ss_pred CCCHHHHHHHHHHHHHHh-CCEEEEEe-CCCC
Confidence 556666667888776667 88888874 4544
No 70
>cd00950 DHDPS Dihydrodipicolinate synthase (DHDPS) is a key enzyme in lysine biosynthesis. It catalyzes the aldol condensation of L-aspartate-beta- semialdehyde and pyruvate to dihydropicolinic acid via a Schiff base formation between pyruvate and a lysine residue. The functional enzyme is a homotetramer consisting of a dimer of dimers. DHDPS is member of dihydrodipicolinate synthase family that comprises several pyruvate-dependent class I aldolases that use the same catalytic step to catalyze different reactions in different pathways.
Probab=21.36 E-value=4.6e+02 Score=22.25 Aligned_cols=23 Identities=9% Similarity=0.127 Sum_probs=16.7
Q ss_pred HHHHHHHhhCCCceEeeeeecCCCCCC
Q psy2326 109 ALVSHVINSCPNLEFTGLMTIGKYGYD 135 (181)
Q Consensus 109 ~l~~~i~~~~p~L~l~GLMTi~~~~~d 135 (181)
+++++. . .+-..|+|.++|..+.
T Consensus 86 ~~a~~a-~---~~G~d~v~~~~P~~~~ 108 (284)
T cd00950 86 ELTKRA-E---KAGADAALVVTPYYNK 108 (284)
T ss_pred HHHHHH-H---HcCCCEEEEcccccCC
Confidence 666665 2 4578999999997544
No 71
>cd06546 GH18_CTS3_chitinase GH18 domain of CTS3 (chitinase 3), an uncharacterized protein from the human fungal pathogen Coccidioides posadasii. CTS3 has a chitinase-like glycosyl hydrolase family 18 (GH18) domain; and has homologs in bacteria as well as fungi.
Probab=20.05 E-value=1.6e+02 Score=25.19 Aligned_cols=19 Identities=26% Similarity=0.476 Sum_probs=13.9
Q ss_pred HHHHHHHhhCCCceEeeeeec
Q psy2326 109 ALVSHVINSCPNLEFTGLMTI 129 (181)
Q Consensus 109 ~l~~~i~~~~p~L~l~GLMTi 129 (181)
..+..+++++| .|.|+|+-
T Consensus 233 ~~v~~l~~~~~--~~gGvm~W 251 (256)
T cd06546 233 STLSTLRQRYP--NFGGVMGW 251 (256)
T ss_pred HHHHHHHHhCC--CCceEEEe
Confidence 56666656677 89999985
Done!