Query psy6043
Match_columns 282
No_of_seqs 156 out of 1430
Neff 4.9
Searched_HMMs 46136
Date Sat Aug 17 01:05:28 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy6043.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/6043hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 cd00433 Peptidase_M17 Cytosol 100.0 1E-100 3E-105 753.8 26.0 259 1-280 171-430 (468)
2 COG0260 PepB Leucyl aminopepti 100.0 8E-101 2E-105 756.1 24.2 259 1-280 184-443 (485)
3 PF00883 Peptidase_M17: Cytoso 100.0 9E-101 2E-105 721.0 22.5 260 1-280 15-275 (311)
4 PRK00913 multifunctional amino 100.0 2E-98 4E-103 740.1 25.0 255 1-280 188-443 (483)
5 PTZ00412 leucyl aminopeptidase 100.0 2.7E-98 6E-103 743.2 25.5 264 1-280 229-494 (569)
6 PRK05015 aminopeptidase B; Pro 100.0 5.4E-97 1E-101 716.6 25.1 261 1-280 117-382 (424)
7 KOG2597|consensus 100.0 1.2E-88 2.6E-93 668.1 22.2 261 1-280 206-467 (513)
8 PF13180 PDZ_2: PDZ domain; PD 78.5 0.75 1.6E-05 34.6 0.3 27 126-152 19-46 (82)
9 cd00986 PDZ_LON_protease PDZ d 77.5 2.5 5.3E-05 31.4 2.9 26 128-153 15-40 (79)
10 cd00991 PDZ_archaeal_metallopr 71.6 3.2 7E-05 31.1 2.2 27 127-153 16-43 (79)
11 PRK08596 acetylornithine deace 68.9 28 0.00061 33.8 8.7 101 5-131 37-153 (421)
12 PRK06837 acetylornithine deace 64.8 74 0.0016 31.0 10.7 23 4-27 40-62 (427)
13 TIGR01910 DapE-ArgE acetylorni 64.5 31 0.00067 32.7 7.8 32 100-131 107-140 (375)
14 cd00990 PDZ_glycyl_aminopeptid 64.0 4.7 0.0001 29.5 1.7 25 128-152 19-44 (80)
15 PRK09104 hypothetical protein; 62.3 40 0.00086 33.2 8.4 101 4-131 43-163 (464)
16 PRK13983 diaminopimelate amino 62.0 43 0.00093 31.7 8.3 32 100-131 119-152 (400)
17 cd00989 PDZ_metalloprotease PD 61.7 4.1 8.9E-05 29.6 1.0 25 129-153 20-45 (79)
18 PRK07906 hypothetical protein; 60.4 36 0.00078 33.0 7.6 100 5-130 26-139 (426)
19 PRK10199 alkaline phosphatase 59.1 1.1E+02 0.0023 30.2 10.6 33 98-130 142-175 (346)
20 PRK08652 acetylornithine deace 58.8 48 0.001 30.7 7.9 98 4-131 22-120 (347)
21 PRK04443 acetyl-lysine deacety 57.8 53 0.0012 30.9 8.1 92 4-130 26-122 (348)
22 cd00988 PDZ_CTP_protease PDZ d 56.8 9.8 0.00021 28.1 2.4 26 127-152 19-45 (85)
23 cd00136 PDZ PDZ domain, also c 56.5 7.6 0.00017 27.6 1.7 27 127-153 19-46 (70)
24 cd00987 PDZ_serine_protease PD 54.0 8.4 0.00018 28.5 1.6 25 129-153 32-57 (90)
25 PRK12891 allantoate amidohydro 53.8 81 0.0017 30.7 8.8 88 5-131 41-130 (414)
26 PRK07522 acetylornithine deace 53.8 73 0.0016 30.1 8.3 106 5-131 26-137 (385)
27 PRK06133 glutamate carboxypept 53.7 1E+02 0.0022 29.9 9.5 105 5-131 61-171 (410)
28 KOG0438|consensus 53.7 25 0.00054 34.2 5.0 23 52-77 102-124 (312)
29 TIGR01892 AcOrn-deacetyl acety 51.9 64 0.0014 30.1 7.5 32 100-131 100-131 (364)
30 cd00992 PDZ_signaling PDZ doma 51.1 14 0.0003 26.8 2.4 25 129-153 34-59 (82)
31 TIGR01880 Ac-peptdase-euk N-ac 50.3 1.5E+02 0.0033 28.4 10.0 32 100-131 114-147 (400)
32 PRK13004 peptidase; Reviewed 49.9 1E+02 0.0022 29.6 8.7 27 100-126 112-140 (399)
33 PRK07318 dipeptidase PepV; Rev 49.8 1.1E+02 0.0025 30.2 9.3 94 5-131 47-153 (466)
34 PRK06915 acetylornithine deace 48.9 93 0.002 30.0 8.3 22 4-26 37-58 (422)
35 smart00228 PDZ Domain present 48.6 13 0.00027 26.9 1.8 26 128-153 33-59 (85)
36 PRK07907 hypothetical protein; 48.3 82 0.0018 30.9 8.0 97 5-131 45-156 (449)
37 PRK13009 succinyl-diaminopimel 47.7 1.4E+02 0.003 28.1 9.1 32 101-132 102-135 (375)
38 KOG1402|consensus 47.3 76 0.0016 31.8 7.3 90 3-118 226-329 (427)
39 KOG1349|consensus 47.0 37 0.0008 32.6 5.0 52 102-155 45-104 (309)
40 PRK09290 allantoate amidohydro 47.0 1.3E+02 0.0029 29.0 9.1 32 100-131 94-127 (413)
41 PF10447 EXOSC1: Exosome compo 46.6 9.1 0.0002 30.1 0.8 13 135-147 66-78 (82)
42 PRK12893 allantoate amidohydro 46.4 95 0.0021 29.9 8.0 32 100-131 97-130 (412)
43 PRK12890 allantoate amidohydro 44.3 1.7E+02 0.0037 28.2 9.4 32 100-131 95-128 (414)
44 PRK08554 peptidase; Reviewed 43.7 99 0.0022 30.6 7.8 32 100-131 105-136 (438)
45 PRK08201 hypothetical protein; 43.6 1.1E+02 0.0024 30.0 8.1 33 100-132 122-156 (456)
46 PRK09133 hypothetical protein; 43.1 84 0.0018 31.1 7.2 32 100-131 143-176 (472)
47 PF11330 DUF3132: Protein of u 42.4 30 0.00066 28.3 3.2 43 129-171 67-109 (124)
48 PRK05469 peptidase T; Provisio 36.1 2.4E+02 0.0053 27.1 9.0 33 99-131 141-175 (408)
49 PRK08588 succinyl-diaminopimel 34.9 1.8E+02 0.0039 27.4 7.8 34 99-132 100-136 (377)
50 PRK09374 rplB 50S ribosomal pr 34.8 80 0.0017 30.2 5.3 25 52-83 75-99 (276)
51 TIGR01887 dipeptidaselike dipe 33.7 2.3E+02 0.005 28.2 8.6 22 4-26 34-55 (447)
52 PRK13381 peptidase T; Provisio 32.8 2E+02 0.0044 27.6 7.9 32 100-131 140-172 (404)
53 PLN02280 IAA-amino acid hydrol 30.9 2.7E+02 0.0059 28.2 8.7 102 4-132 117-222 (478)
54 PRK12892 allantoate amidohydro 30.5 2.2E+02 0.0047 27.3 7.6 31 100-130 95-127 (412)
55 PRK07079 hypothetical protein; 30.0 2.2E+02 0.0049 28.1 7.8 31 100-130 129-162 (469)
56 PF09926 DUF2158: Uncharacteri 30.0 32 0.00069 25.0 1.4 28 138-165 1-33 (53)
57 PRK09612 rpl2p 50S ribosomal p 29.3 1.1E+02 0.0023 28.8 5.1 26 51-83 39-64 (238)
58 PF13973 DUF4222: Domain of un 28.6 48 0.001 24.0 2.1 26 138-164 3-28 (53)
59 PLN02693 IAA-amino acid hydrol 28.2 3.6E+02 0.0079 26.7 8.9 32 100-131 138-171 (437)
60 PF14685 Tricorn_PDZ: Tricorn 27.9 36 0.00079 27.0 1.5 18 136-153 38-55 (88)
61 TIGR02038 protease_degS peripl 27.6 33 0.00072 33.1 1.5 28 126-153 283-311 (351)
62 PF13275 S4_2: S4 domain; PDB: 27.3 51 0.0011 24.9 2.1 20 135-155 46-65 (65)
63 KOG3857|consensus 27.2 36 0.00078 34.2 1.6 39 7-46 87-139 (465)
64 PTZ00031 ribosomal protein L2; 26.2 1.3E+02 0.0028 29.5 5.2 20 52-74 106-125 (317)
65 cd05707 S1_Rrp5_repeat_sc11 S1 26.2 54 0.0012 23.4 2.1 39 121-165 23-67 (68)
66 KOG2367|consensus 26.2 51 0.0011 34.2 2.5 39 39-88 507-545 (560)
67 CHL00052 rpl2 ribosomal protei 25.6 1.3E+02 0.0029 28.7 5.1 26 51-83 72-97 (273)
68 cd05687 S1_RPS1_repeat_ec1_hs1 25.6 44 0.00096 23.9 1.5 37 123-165 25-67 (70)
69 TIGR01171 rplB_bact ribosomal 25.0 1.4E+02 0.0031 28.5 5.2 26 52-84 73-98 (273)
70 PRK10942 serine endoprotease; 24.9 44 0.00096 33.8 1.9 25 129-153 319-344 (473)
71 PRK08262 hypothetical protein; 24.8 5.8E+02 0.013 25.3 9.7 34 99-132 155-190 (486)
72 TIGR01713 typeII_sec_gspC gene 24.5 43 0.00094 31.3 1.6 16 138-153 209-224 (259)
73 PRK10139 serine endoprotease; 24.1 46 0.00099 33.6 1.8 25 129-153 298-323 (455)
74 TIGR00225 prc C-terminal pepti 23.8 49 0.0011 31.5 1.8 26 128-153 69-95 (334)
75 PF00595 PDZ: PDZ domain (Also 23.6 22 0.00047 26.2 -0.5 24 130-153 34-58 (81)
76 PRK10898 serine endoprotease; 23.3 53 0.0012 31.8 2.0 26 127-152 285-311 (353)
77 PRK09681 putative type II secr 23.2 44 0.00096 31.9 1.4 33 120-152 193-239 (276)
78 PRK10779 zinc metallopeptidase 22.7 45 0.00098 33.3 1.4 24 129-152 134-158 (449)
79 PRK07473 carboxypeptidase; Pro 22.4 5.8E+02 0.013 24.5 8.9 32 100-131 114-147 (376)
80 PRK06156 hypothetical protein; 22.2 4.3E+02 0.0092 26.8 8.3 31 100-130 156-188 (520)
81 COG3480 SdrC Predicted secrete 22.0 1.5E+02 0.0032 29.4 4.7 56 109-174 114-173 (342)
82 PRK06446 hypothetical protein; 21.7 4.2E+02 0.0092 25.9 7.9 22 4-26 25-46 (436)
83 TIGR02037 degP_htrA_DO peripla 21.2 55 0.0012 32.2 1.7 28 125-152 366-394 (428)
84 TIGR00054 RIP metalloprotease 20.7 47 0.001 32.9 1.1 24 129-152 211-235 (420)
85 TIGR01902 dapE-lys-deAc N-acet 20.4 6.7E+02 0.014 23.3 8.7 18 4-22 17-34 (336)
86 cd04454 S1_Rrp4_like S1_Rrp4_l 20.3 1.1E+02 0.0024 22.7 2.9 38 122-165 30-72 (82)
87 PRK07338 hypothetical protein; 20.1 4.1E+02 0.0088 25.4 7.3 31 101-131 132-164 (402)
No 1
>cd00433 Peptidase_M17 Cytosol aminopeptidase family, N-terminal and catalytic domains. Family M17 contains zinc- and manganese-dependent exopeptidases ( EC 3.4.11.1), including leucine aminopeptidase. They catalyze removal of amino acids from the N-terminus of a protein and play a key role in protein degradation and in the metabolism of biologically active peptides. They do not contain HEXXH motif (which is used as one of the signature patterns to group the peptidase families) in the metal-binding site. The two associated zinc ions and the active site are entirely enclosed within the C-terminal catalytic domain in leucine aminopeptidase. The enzyme is a hexamer, with the catalytic domains clustered around the three-fold axis, and the two trimers related to one another by a two-fold rotation. The N-terminal domain is structurally similar to the ADP-ribose binding Macro domain. This family includes proteins from bacteria, archaea, animals and plants.
Probab=100.00 E-value=1.4e-100 Score=753.80 Aligned_cols=259 Identities=33% Similarity=0.491 Sum_probs=246.4
Q ss_pred CCcHHHHHHHHHhhcCCCCeEEEEecchHHHhccCChhhHhhhccCCCCCCCceEEEEEecCCCCCCCCceEeeccceEE
Q psy6043 1 MAPPKVEEYILETFKNTPSIKINIIKDPKILDKEYPLFSAVNRAASVIDRHQGRVIFLEYEPTSSSPTSSLFLVGKGVTY 80 (282)
Q Consensus 1 MtP~~~a~~~~~~~~~~~~v~v~v~~~~~~~~~gm~~~laVg~gS~~~s~~~p~~v~l~Y~~~~~~~~~~iaLVGKGiTF 80 (282)
|||+.||+++++++++++ ++|+|++++|++++|||+||+|||||. +|||||+|+|+|++ +.+++|+||||||||
T Consensus 171 ~tP~~~a~~a~~l~~~~g-~~v~V~~~~~l~~~gmg~~laVg~GS~----~~p~lv~l~Y~g~~-~~~~~i~LVGKGiTF 244 (468)
T cd00433 171 LTPTYLAEEAKELAKELG-VKVEVLDEKELEELGMGALLAVGKGSE----EPPRLIVLEYKGKG-ASKKPIALVGKGITF 244 (468)
T ss_pred CCHHHHHHHHHHHHHhcC-CEEEEEcHHHHHhCCCCceeeecccCC----CCCEEEEEEECCCC-CCCCcEEEEcCceEe
Confidence 799999999999999997 999999999999999999999999986 89999999999987 568899999999999
Q ss_pred ccCCCCCCCCCCcccCccCcchHHHHHHHHHHHHhcCCCeEEEEeeeeeccCCCCCCCCCCceEEccCCeEEEecCCCcc
Q psy6043 81 DTGGADIKISGNMAGMARDKCGAAVVAGFMKAVAMLQPKVRVVGALAVVRNSCGENSYVSDEVVVSRAGKRIRVTNTDAE 160 (282)
Q Consensus 81 DsGG~slKp~~~M~~Mk~DM~GAAaV~ga~~a~a~l~~~vnV~~il~~~EN~i~~~a~~pgDVi~s~~GkTVEI~NTDAE 160 (282)
|||||||||+.+|.+||+||+|||+|+|+|++++++++|+||++++|+|||||||+|||||||||+||||||||.|||||
T Consensus 245 DsGG~slKp~~~M~~Mk~DM~GAAaVlga~~aia~l~~~vnV~~i~~~~EN~is~~A~rPgDVi~s~~GkTVEI~NTDAE 324 (468)
T cd00433 245 DTGGLSLKPAAGMDGMKYDMGGAAAVLGAMKAIAELKLPVNVVGVLPLAENMISGNAYRPGDVITSRSGKTVEILNTDAE 324 (468)
T ss_pred cCCCccccCccChhhccccchhHHHHHHHHHHHHHcCCCceEEEEEEeeecCCCCCCCCCCCEeEeCCCcEEEEecCCcc
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cceehhhhhHHHHHhhhhcCCC-ceEEeeccchhhHhhhCCCeeEEeeCCcccHHHHHHHHHHHhhhhCCCcccCcCCch
Q psy6043 161 GRFAMADVLAHMAEKAKDAVNP-HLFTIATLTGHACLTVGEGYSIVMDNGPARQENNAVLLSETGEAMGDPFEISRIRRE 239 (282)
Q Consensus 161 GRLvLADaL~ya~~~~~~~~~p-~iIDiATLTGa~~~ALG~~~ag~~~n~~~~~~~l~~~l~~ag~~~ge~~w~~pl~~~ 239 (282)
|||||||+|+||++ ++| .|||+|||||||++|||++++|+|+|++ +|++++++||+++||++|||||++
T Consensus 325 GRLVLaDal~ya~~-----~~p~~iIDiATLTGA~~vALG~~~ag~~sn~d----~l~~~l~~Ag~~~gE~~WrlPl~~- 394 (468)
T cd00433 325 GRLVLADALTYAQE-----FKPDLIIDIATLTGAAVVALGHDYAGLFTNDD----ELAKQLLAAGEASGERVWRLPLWE- 394 (468)
T ss_pred cceeehhHHHHHhh-----cCCCEEEEecchHHHHHHHcCCCceEEecCCH----HHHHHHHHHHHHhCCcEeecCCCH-
Confidence 99999999999974 689 7999999999999999999999999995 699999999999999999999965
Q ss_pred hhhhccCCCCchhhhCCCCCCCCCCCCCchHHHHHHhhhhC
Q psy6043 240 DFRFFKSKCEGEDLIQSGMKSSGSNSRGHQGPGAFLIGASG 280 (282)
Q Consensus 240 ~~~~~~~~s~~ADl~n~~~~~~~~~~~g~~~aAaFL~~~s~ 280 (282)
+| ++.++|++|||+|++.. +.+|+|+||+||++|.+
T Consensus 395 ~y-~~~lks~vADl~N~~~~----~~~g~~tAA~FL~~Fv~ 430 (468)
T cd00433 395 EY-REQLKSDIADLKNIGGR----GPAGSITAALFLKEFVG 430 (468)
T ss_pred HH-HHHcCCCchhhhCCCCC----CCCcccHHHHHHHHHhC
Confidence 44 36789999999999842 36899999999999986
No 2
>COG0260 PepB Leucyl aminopeptidase [Amino acid transport and metabolism]
Probab=100.00 E-value=8.1e-101 Score=756.12 Aligned_cols=259 Identities=32% Similarity=0.447 Sum_probs=244.1
Q ss_pred CCcHHHHHHHHHhhcCCCCeEEEEecchHHHhccCChhhHhhhccCCCCCCCceEEEEEecCCCCCCCCceEeeccceEE
Q psy6043 1 MAPPKVEEYILETFKNTPSIKINIIKDPKILDKEYPLFSAVNRAASVIDRHQGRVIFLEYEPTSSSPTSSLFLVGKGVTY 80 (282)
Q Consensus 1 MtP~~~a~~~~~~~~~~~~v~v~v~~~~~~~~~gm~~~laVg~gS~~~s~~~p~~v~l~Y~~~~~~~~~~iaLVGKGiTF 80 (282)
|+|.+||++++.+.+..+ |+|+|+++++|+++|||+||+|||||. +|||||+|+|+|.+ .++++|+||||||||
T Consensus 184 l~P~~la~~a~~la~~~~-v~veVl~~~~l~~~gmg~llaVg~GS~----~~Prlivl~y~g~~-~~~~~iaLVGKGitF 257 (485)
T COG0260 184 LTPEELAERAELLAKLGG-VKVEVLDEKDLEKLGMGALLAVGKGSA----RPPRLIVLEYNGKG-KAKKPIALVGKGITF 257 (485)
T ss_pred CCHHHHHHHHHHHhhcCC-ceEEEecHHHHHHcCCceeeeeccCCC----CCCeEEEEEcCCCC-CCCceEEEEcCceee
Confidence 799999999777666666 999999999999999999999999985 89999999999998 567899999999999
Q ss_pred ccCCCCCCCCCCcccCccCcchHHHHHHHHHHHHhcCCCeEEEEeeeeeccCCCCCCCCCCceEEccCCeEEEecCCCcc
Q psy6043 81 DTGGADIKISGNMAGMARDKCGAAVVAGFMKAVAMLQPKVRVVGALAVVRNSCGENSYVSDEVVVSRAGKRIRVTNTDAE 160 (282)
Q Consensus 81 DsGG~slKp~~~M~~Mk~DM~GAAaV~ga~~a~a~l~~~vnV~~il~~~EN~i~~~a~~pgDVi~s~~GkTVEI~NTDAE 160 (282)
|||||||||+.+|.+||+||||||+|+|+|.+++++++|+||++++|+|||||||+|||||||||+||||||||.|||||
T Consensus 258 DsGGisiKp~~~M~~MK~DMgGAAaV~g~~~a~a~l~l~vnv~~vl~~~ENm~~g~A~rPGDVits~~GkTVEV~NTDAE 337 (485)
T COG0260 258 DSGGISIKPAAGMDTMKYDMGGAAAVLGAMRALAELKLPVNVVGVLPAVENMPSGNAYRPGDVITSMNGKTVEVLNTDAE 337 (485)
T ss_pred cCCCcccCCccchhhhhcccchHHHHHHHHHHHHHcCCCceEEEEEeeeccCCCCCCCCCCCeEEecCCcEEEEcccCcc
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cceehhhhhHHHHHhhhhcCCC-ceEEeeccchhhHhhhCCCeeEEeeCCcccHHHHHHHHHHHhhhhCCCcccCcCCch
Q psy6043 161 GRFAMADVLAHMAEKAKDAVNP-HLFTIATLTGHACLTVGEGYSIVMDNGPARQENNAVLLSETGEAMGDPFEISRIRRE 239 (282)
Q Consensus 161 GRLvLADaL~ya~~~~~~~~~p-~iIDiATLTGa~~~ALG~~~ag~~~n~~~~~~~l~~~l~~ag~~~ge~~w~~pl~~~ 239 (282)
|||||||+|+||++ ++| .|||+|||||||++|||++++|+|+||| +|+++|.+|++++|||+|||||+++
T Consensus 338 GRLVLADaLtYA~~-----~kp~~iID~ATLTGA~~vALG~~~~g~fs~dd----~La~~l~~As~~~gE~~WrLPl~~~ 408 (485)
T COG0260 338 GRLVLADALTYAEE-----LKPDLIIDVATLTGAAVVALGNDYTGLFSNDD----ELANQLLAASEETGEPLWRLPLHEE 408 (485)
T ss_pred HHHHHHHHHHHHHH-----cCCCEEEEehhhHhHHHHHhCCCccccccCCH----HHHHHHHHHHHHcCCccccCCCCHH
Confidence 99999999999975 489 7999999999999999999999999985 7999999999999999999999765
Q ss_pred hhhhccCCCCchhhhCCCCCCCCCCCCCchHHHHHHhhhhC
Q psy6043 240 DFRFFKSKCEGEDLIQSGMKSSGSNSRGHQGPGAFLIGASG 280 (282)
Q Consensus 240 ~~~~~~~~s~~ADl~n~~~~~~~~~~~g~~~aAaFL~~~s~ 280 (282)
| ++.++|++|||+|+++ ++++|++|||+||++|..
T Consensus 409 -y-~~~l~S~~ADl~N~~~----~~~gGaitAA~FL~~Fv~ 443 (485)
T COG0260 409 -Y-RKQLKSNFADLANIGG----GRFGGAITAALFLSEFVE 443 (485)
T ss_pred -H-HhhcCCcchhhhcCCC----CCCCcHHHHHHHHHHHcC
Confidence 4 4678999999999884 257999999999999964
No 3
>PF00883 Peptidase_M17: Cytosol aminopeptidase family, catalytic domain; InterPro: IPR000819 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Metalloproteases are the most diverse of the four main types of protease, with more than 50 families identified to date. In these enzymes, a divalent cation, usually zinc, activates the water molecule. The metal ion is held in place by amino acid ligands, usually three in number. The known metal ligands are His, Glu, Asp or Lys and at least one other residue is required for catalysis, which may play an electrophillic role. Of the known metalloproteases, around half contain an HEXXH motif, which has been shown in crystallographic studies to form part of the metal-binding site []. The HEXXH motif is relatively common, but can be more stringently defined for metalloproteases as 'abXHEbbHbc', where 'a' is most often valine or threonine and forms part of the S1' subsite in thermolysin and neprilysin, 'b' is an uncharged residue, and 'c' a hydrophobic residue. Proline is never found in this site, possibly because it would break the helical structure adopted by this motif in metalloproteases []. This group of metallopeptidases belong to the MEROPS peptidase family M17 (leucyl aminopeptidase family, clan MF), the type example being leucyl aminopeptidase from Bos taurus (Bovine). Aminopeptidases are exopeptidases involved in the processing and regular turnover of intracellular proteins, although their precise role in cellular metabolism is unclear [, ]. Leucine aminopeptidases cleave leucine residues from the N-terminal of polypeptide chains, but substantial rates are evident for all amino acids []. The enzymes exist as homo-hexamers, comprising 2 trimers stacked on top of one another []. Each monomer binds 2 zinc ions and folds into 2 alpha/beta-type quasi-spherical globular domains, producing a comma-like shape []. The N-terminal 150 residues form a 5-stranded beta-sheet with 4 parallel and 1 anti-parallel strand sandwiched between 4 alpha-helices []. An alpha-helix extends into the C-terminal domain, which comprises a central 8-stranded saddle-shaped beta-sheet sandwiched between groups of helices, forming the monomer hydrophobic core []. A 3-stranded beta-sheet resides on the surface of the monomer, where it interacts with other members of the hexamer []. The 2 zinc ions and the active site are entirely located in the C-terminal catalytic domain [].; GO: 0004177 aminopeptidase activity, 0006508 proteolysis, 0005622 intracellular; PDB: 3KZW_L 3KQX_C 3KQZ_L 3KR4_I 3KR5_J 3T8W_C 3H8F_D 3H8G_A 3H8E_B 3IJ3_A ....
Probab=100.00 E-value=9.5e-101 Score=721.01 Aligned_cols=260 Identities=34% Similarity=0.496 Sum_probs=227.4
Q ss_pred CCcHHHHHHHHHhhcCCCCeEEEEecchHHHhccCChhhHhhhccCCCCCCCceEEEEEecCCCCCCCCceEeeccceEE
Q psy6043 1 MAPPKVEEYILETFKNTPSIKINIIKDPKILDKEYPLFSAVNRAASVIDRHQGRVIFLEYEPTSSSPTSSLFLVGKGVTY 80 (282)
Q Consensus 1 MtP~~~a~~~~~~~~~~~~v~v~v~~~~~~~~~gm~~~laVg~gS~~~s~~~p~~v~l~Y~~~~~~~~~~iaLVGKGiTF 80 (282)
|||+.||+++++++++++ ++|+|+++++++++|||+|++|||||. ||||||+|+|+|++.+.+++|+||||||||
T Consensus 15 ~~P~~~a~~~~~~~~~~~-v~v~v~~~~~l~~~gmg~llaVg~gS~----~~P~lv~l~Y~g~~~~~~~~i~LVGKGiTF 89 (311)
T PF00883_consen 15 LTPETFAEYAKELAKKYG-VKVEVLDEKELEKLGMGGLLAVGRGSR----HPPRLVVLEYKGNGGKSKKPIALVGKGITF 89 (311)
T ss_dssp SSHHHHHHHHHHHHHHCT-EEEEEEEHHHHHHTT-HHHHHHHTTSS----S--EEEEEEEETSTSTTSEEEEEEEEEEEE
T ss_pred cCHHHHHHHHHHHHhhcC-CEEEEEeHHHHHHcCCccEeeecccCC----CCCEEEEEEECCCCCCCCccEEEEcceEEE
Confidence 799999999999999999 999999999999999999999999985 899999999999874467899999999999
Q ss_pred ccCCCCCCCCCCcccCccCcchHHHHHHHHHHHHhcCCCeEEEEeeeeeccCCCCCCCCCCceEEccCCeEEEecCCCcc
Q psy6043 81 DTGGADIKISGNMAGMARDKCGAAVVAGFMKAVAMLQPKVRVVGALAVVRNSCGENSYVSDEVVVSRAGKRIRVTNTDAE 160 (282)
Q Consensus 81 DsGG~slKp~~~M~~Mk~DM~GAAaV~ga~~a~a~l~~~vnV~~il~~~EN~i~~~a~~pgDVi~s~~GkTVEI~NTDAE 160 (282)
|||||||||+.+|.+||+||+|||+|+|+|+++++||+|+||+++||+||||||++|||||||||++|||||||.|||||
T Consensus 90 DtGG~~lKp~~~M~~Mk~DM~GAAaV~ga~~aia~lk~~vnV~~~l~~~EN~i~~~a~~pgDVi~s~~GkTVEI~NTDAE 169 (311)
T PF00883_consen 90 DTGGLSLKPSGGMEGMKYDMGGAAAVLGAMRAIAKLKLPVNVVAVLPLAENMISGNAYRPGDVITSMNGKTVEIGNTDAE 169 (311)
T ss_dssp EE-TTSSSCSTTGGGGGGGGHHHHHHHHHHHHHHHCT-SSEEEEEEEEEEE--STTSTTTTEEEE-TTS-EEEES-TTGH
T ss_pred ecCCccCCCCcchhhcccCcchHHHHHHHHHHHHHcCCCceEEEEEEcccccCCCCCCCCCCEEEeCCCCEEEEEeeCcc
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cceehhhhhHHHHHhhhhcCCC-ceEEeeccchhhHhhhCCCeeEEeeCCcccHHHHHHHHHHHhhhhCCCcccCcCCch
Q psy6043 161 GRFAMADVLAHMAEKAKDAVNP-HLFTIATLTGHACLTVGEGYSIVMDNGPARQENNAVLLSETGEAMGDPFEISRIRRE 239 (282)
Q Consensus 161 GRLvLADaL~ya~~~~~~~~~p-~iIDiATLTGa~~~ALG~~~ag~~~n~~~~~~~l~~~l~~ag~~~ge~~w~~pl~~~ 239 (282)
|||||||+|+||++ ++| .|||+|||||+|++|||++++|+|+|++ ++++++++||+++||++||||+++
T Consensus 170 GRLvLADaL~ya~~-----~~p~~iiDiATLTGa~~~ALG~~~ag~~sn~~----~l~~~l~~ag~~~gE~~WrlPl~~- 239 (311)
T PF00883_consen 170 GRLVLADALTYAQE-----YKPDLIIDIATLTGACVVALGSDYAGVFSNDD----ELAKQLQEAGERSGERVWRLPLWE- 239 (311)
T ss_dssp HHHHHHHHHHHHHG-----GT-SEEEEEEE--HHHHHHHTTTSEEEEESSH----HHHHHHHHHHHHHT--EEEE---H-
T ss_pred cceeehhHHHHHHh-----hCCceEEeehhhhhHHHeeECCceeeeecCCH----HHHHHHHHHHHhcCCceecccccH-
Confidence 99999999999974 688 7999999999999999999999999985 699999999999999999999954
Q ss_pred hhhhccCCCCchhhhCCCCCCCCCCCCCchHHHHHHhhhhC
Q psy6043 240 DFRFFKSKCEGEDLIQSGMKSSGSNSRGHQGPGAFLIGASG 280 (282)
Q Consensus 240 ~~~~~~~~s~~ADl~n~~~~~~~~~~~g~~~aAaFL~~~s~ 280 (282)
+| ++.++|++|||+|++.. +.+|+|+||+||++|..
T Consensus 240 ~y-~~~lks~~ADl~N~~~~----~~~g~~~AA~FL~~Fv~ 275 (311)
T PF00883_consen 240 EY-REQLKSDIADLKNSGGR----RGAGAITAAAFLKEFVE 275 (311)
T ss_dssp HH-GGGGC-SSSSEESSSSS----STTHHHHHHHHHHTTCT
T ss_pred HH-HHhcccccchhhccCCC----CCCCccHHHHHHHHhCC
Confidence 44 46789999999999843 23799999999999964
No 4
>PRK00913 multifunctional aminopeptidase A; Provisional
Probab=100.00 E-value=2e-98 Score=740.07 Aligned_cols=255 Identities=30% Similarity=0.426 Sum_probs=242.0
Q ss_pred CCcHHHHHHHHHhhcCCCCeEEEEecchHHHhccCChhhHhhhccCCCCCCCceEEEEEecCCCCCCCCceEeeccceEE
Q psy6043 1 MAPPKVEEYILETFKNTPSIKINIIKDPKILDKEYPLFSAVNRAASVIDRHQGRVIFLEYEPTSSSPTSSLFLVGKGVTY 80 (282)
Q Consensus 1 MtP~~~a~~~~~~~~~~~~v~v~v~~~~~~~~~gm~~~laVg~gS~~~s~~~p~~v~l~Y~~~~~~~~~~iaLVGKGiTF 80 (282)
|||+.||+++++++++++ ++|+|+++++++++|||+||+|||||. +|||||+|+|+|++ ++|+||||||||
T Consensus 188 ~tP~~~a~~a~~~~~~~g-~~v~V~~~~~l~~~gmg~~laVg~GS~----~~prli~l~Y~g~~----~~i~LVGKGITF 258 (483)
T PRK00913 188 LTPAYLAERAKELAKEYG-LEVEVLDEKEMEKLGMGALLAVGQGSA----NPPRLIVLEYKGGK----KPIALVGKGLTF 258 (483)
T ss_pred cCHHHHHHHHHHHHHhcC-CEEEEEeHHHHHhCCCCcEEEEeccCC----CCCeEEEEEECCCC----CeEEEEcCceEe
Confidence 799999999999999997 999999999999999999999999986 89999999999853 789999999999
Q ss_pred ccCCCCCCCCCCcccCccCcchHHHHHHHHHHHHhcCCCeEEEEeeeeeccCCCCCCCCCCceEEccCCeEEEecCCCcc
Q psy6043 81 DTGGADIKISGNMAGMARDKCGAAVVAGFMKAVAMLQPKVRVVGALAVVRNSCGENSYVSDEVVVSRAGKRIRVTNTDAE 160 (282)
Q Consensus 81 DsGG~slKp~~~M~~Mk~DM~GAAaV~ga~~a~a~l~~~vnV~~il~~~EN~i~~~a~~pgDVi~s~~GkTVEI~NTDAE 160 (282)
|||||||||+.+|++||+||+|||+|+|+|+|++++|+|+||++++|+|||||||+|||||||||+||||||||.|||||
T Consensus 259 DsGG~slKp~~~M~~MK~DM~GAAaVlga~~aia~lkl~vnV~~v~~l~ENm~~~~A~rPgDVi~~~~GkTVEV~NTDAE 338 (483)
T PRK00913 259 DSGGISLKPAAGMDEMKYDMGGAAAVLGTMRALAELKLPVNVVGVVAACENMPSGNAYRPGDVLTSMSGKTIEVLNTDAE 338 (483)
T ss_pred cCCCccCCCCcChhhcccccHhHHHHHHHHHHHHHcCCCceEEEEEEeeccCCCCCCCCCCCEEEECCCcEEEeecCCcc
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cceehhhhhHHHHHhhhhcCCC-ceEEeeccchhhHhhhCCCeeEEeeCCcccHHHHHHHHHHHhhhhCCCcccCcCCch
Q psy6043 161 GRFAMADVLAHMAEKAKDAVNP-HLFTIATLTGHACLTVGEGYSIVMDNGPARQENNAVLLSETGEAMGDPFEISRIRRE 239 (282)
Q Consensus 161 GRLvLADaL~ya~~~~~~~~~p-~iIDiATLTGa~~~ALG~~~ag~~~n~~~~~~~l~~~l~~ag~~~ge~~w~~pl~~~ 239 (282)
|||||||+|+||++ ++| +|||+|||||||++|||++++|+|+|++ ++++++++||+++||++|||||++
T Consensus 339 GRLvLADal~ya~~-----~~p~~iiDiATLTGa~~vALG~~~ag~~sn~~----~l~~~~~~a~~~~gE~~WrlPl~~- 408 (483)
T PRK00913 339 GRLVLADALTYAER-----FKPDAIIDVATLTGACVVALGHHTAGLMSNND----ELADELLKAGEESGERAWRLPLGD- 408 (483)
T ss_pred cceeehhHHHHhhh-----cCCCEEEEecchHHHHHHHcCCCcEEEEeCCH----HHHHHHHHHHHHHCCceeecCCCH-
Confidence 99999999999953 689 7999999999999999999999999985 699999999999999999999964
Q ss_pred hhhhccCCCCchhhhCCCCCCCCCCCCCchHHHHHHhhhhC
Q psy6043 240 DFRFFKSKCEGEDLIQSGMKSSGSNSRGHQGPGAFLIGASG 280 (282)
Q Consensus 240 ~~~~~~~~s~~ADl~n~~~~~~~~~~~g~~~aAaFL~~~s~ 280 (282)
+|+ +.++|++|||+|++. +.+|+|+||+||++|..
T Consensus 409 ~y~-~~l~S~vADl~N~~~-----~~~ga~~AA~FL~~Fv~ 443 (483)
T PRK00913 409 EYQ-EQLKSPFADMANIGG-----RPGGAITAACFLSRFVE 443 (483)
T ss_pred HHH-hHCCCchhhhcCCCC-----CCccccHHHHHHHHhCC
Confidence 454 567999999999872 46899999999999973
No 5
>PTZ00412 leucyl aminopeptidase; Provisional
Probab=100.00 E-value=2.7e-98 Score=743.19 Aligned_cols=264 Identities=31% Similarity=0.416 Sum_probs=246.0
Q ss_pred CCcHHHHHHHHHhhcCCCCeEEE-EecchHHHhccCChhhHhhhccCCCCCCCceEEEEEecCCCCCCCCceEeeccceE
Q psy6043 1 MAPPKVEEYILETFKNTPSIKIN-IIKDPKILDKEYPLFSAVNRAASVIDRHQGRVIFLEYEPTSSSPTSSLFLVGKGVT 79 (282)
Q Consensus 1 MtP~~~a~~~~~~~~~~~~v~v~-v~~~~~~~~~gm~~~laVg~gS~~~s~~~p~~v~l~Y~~~~~~~~~~iaLVGKGiT 79 (282)
|||+.||+++++++++++ ++|+ |++++||+++|||+||+|||||. +||+||+|+|+|.+ +.+++|+|||||||
T Consensus 229 ltP~~~Ae~a~~~~~~~g-~~v~~Vl~~~~l~~~gmg~llaVgkGS~----~pPrli~L~Y~g~~-~~~~~iaLVGKGIT 302 (569)
T PTZ00412 229 GVPQFYAEWIKKELAPLG-IKVRKVLRGEQLEGAGLNLMYNVGKGSR----HEPYLVVFEYIGNP-RSSAATALVGKGVT 302 (569)
T ss_pred cCHHHHHHHHHHHHhhcC-CEEEEEEcHHHHHHCCCcceeeeeccCC----CCCEEEEEEeCCCC-CCCCcEEEEcCceE
Confidence 799999999999888887 9996 99999999999999999999985 89999999999976 56789999999999
Q ss_pred EccCCCCCCCCCCcccCccCcchHHHHHHHHHHHHhcCCCeEEEEeeeeeccCCCCCCCCCCceEEccCCeEEEecCCCc
Q psy6043 80 YDTGGADIKISGNMAGMARDKCGAAVVAGFMKAVAMLQPKVRVVGALAVVRNSCGENSYVSDEVVVSRAGKRIRVTNTDA 159 (282)
Q Consensus 80 FDsGG~slKp~~~M~~Mk~DM~GAAaV~ga~~a~a~l~~~vnV~~il~~~EN~i~~~a~~pgDVi~s~~GkTVEI~NTDA 159 (282)
||||||||||+.+|++||+||+|||+|+|+|+|+++|++|+||++++|+|||||||+|||||||||+||||||||.||||
T Consensus 303 FDSGGisLKP~~~M~~MK~DMgGAAaVlga~~AiA~LklpvnVv~iiplaENm~sg~A~rPGDVits~nGkTVEV~NTDA 382 (569)
T PTZ00412 303 FDCGGLNIKPYGSMETMHSDMMGAATVMCTLKAIAKLQLPVNVVAAVGLAENAIGPESYHPSSIITSRKGLTVEVLNTDA 382 (569)
T ss_pred EcCCCCCCCCccChhhhhccchhHHHHHHHHHHHHHcCCCeEEEEEEEhhhcCCCCCCCCCCCEeEecCCCEEeecccCc
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred ccceehhhhhHHHHHhhhhcCCC-ceEEeeccchhhHhhhCCCeeEEeeCCcccHHHHHHHHHHHhhhhCCCcccCcCCc
Q psy6043 160 EGRFAMADVLAHMAEKAKDAVNP-HLFTIATLTGHACLTVGEGYSIVMDNGPARQENNAVLLSETGEAMGDPFEISRIRR 238 (282)
Q Consensus 160 EGRLvLADaL~ya~~~~~~~~~p-~iIDiATLTGa~~~ALG~~~ag~~~n~~~~~~~l~~~l~~ag~~~ge~~w~~pl~~ 238 (282)
||||||||+|+||+++.+-.++| .|||+|||||||++|||++++|+|+|++ +|++++++||+++||++|||||++
T Consensus 383 EGRLVLADaL~YA~~~~~~~~~P~~iIDiATLTGA~vvALG~~~aGvfsN~d----~l~~~l~~Ag~~sGE~~WrLPL~~ 458 (569)
T PTZ00412 383 EGRLVLADTLTYVQKDAKLDKKPTTIIDIATLTGAIIVGLGSRRAGLFSNDA----HLAQSLMASGRSSGEELWPMPIGD 458 (569)
T ss_pred hhhhhhHHHHHHHHhhhccccCCcEEEEecccHHHHHHHhCCCceEEecCCH----HHHHHHHHHHHHhCCceeeCCCCH
Confidence 99999999999998642223689 7999999999999999999999999985 699999999999999999999954
Q ss_pred hhhhhccCCCCchhhhCCCCCCCCCCCCCchHHHHHHhhhhC
Q psy6043 239 EDFRFFKSKCEGEDLIQSGMKSSGSNSRGHQGPGAFLIGASG 280 (282)
Q Consensus 239 ~~~~~~~~~s~~ADl~n~~~~~~~~~~~g~~~aAaFL~~~s~ 280 (282)
+| .+.++|++|||+|++. .+.+|+||||+||++|..
T Consensus 459 -ey-~~~lkS~vADi~N~~~----gr~aGaitAA~FL~~Fv~ 494 (569)
T PTZ00412 459 -EH-KDAMKGGIADLINVAS----GREAGSCTAAAFLSNFVE 494 (569)
T ss_pred -HH-HHHcCCCchhhcCCCC----CCCCcccHHHHHHHHhcC
Confidence 44 3667999999999863 246899999999999973
No 6
>PRK05015 aminopeptidase B; Provisional
Probab=100.00 E-value=5.4e-97 Score=716.59 Aligned_cols=261 Identities=29% Similarity=0.420 Sum_probs=243.0
Q ss_pred CCcHHHHHHHHHhhcCCC--CeEEEEecchHHHhccCChhhHhhhccCCCCCCCceEEEEEecCCCCCCCCce--Eeecc
Q psy6043 1 MAPPKVEEYILETFKNTP--SIKINIIKDPKILDKEYPLFSAVNRAASVIDRHQGRVIFLEYEPTSSSPTSSL--FLVGK 76 (282)
Q Consensus 1 MtP~~~a~~~~~~~~~~~--~v~v~v~~~~~~~~~gm~~~laVg~gS~~~s~~~p~~v~l~Y~~~~~~~~~~i--aLVGK 76 (282)
|+|..||+++++++++++ +++|+|+++++|+++||++|++|||||. +||+||+|+|+|.+ +.++++ +||||
T Consensus 117 ltP~~lA~~a~~~~~~~~~~~v~v~Vl~~~~L~~~gmggilaVgrGS~----~pP~lv~L~Y~~~g-~~~~~v~~aLVGK 191 (424)
T PRK05015 117 LGPEQLAQRAADLICSVAGDAVSYRIIKGEDLREQGYMGIHTVGRGSE----RPPVLLALDYNPTG-DPDAPVYACLVGK 191 (424)
T ss_pred CCHHHHHHHHHHHHHhhccCceEEEEeeHHHHHHCCCCceeeeeccCC----CCCEEEEEEecCCC-CCCCCeeEEEecC
Confidence 799999999999998863 4999999999999999999999999986 89999999999877 445565 99999
Q ss_pred ceEEccCCCCCCCCCCcccCccCcchHHHHHHHHHHHHhcCCCeEEEEeeeeeccCCCCCCCCCCceEEccCCeEEEecC
Q psy6043 77 GVTYDTGGADIKISGNMAGMARDKCGAAVVAGFMKAVAMLQPKVRVVGALAVVRNSCGENSYVSDEVVVSRAGKRIRVTN 156 (282)
Q Consensus 77 GiTFDsGG~slKp~~~M~~Mk~DM~GAAaV~ga~~a~a~l~~~vnV~~il~~~EN~i~~~a~~pgDVi~s~~GkTVEI~N 156 (282)
|||||||||||||+.+|..||+||+|||+|+|+|.+++++++|+||++++|+|||||||+|||||||||++|||||||.|
T Consensus 192 GITFDSGG~sLKps~~M~~MK~DMgGAAaV~ga~~~a~~~~l~~nV~~il~~aENmisg~A~kpgDVIt~~nGkTVEI~N 271 (424)
T PRK05015 192 GITFDSGGYSIKPSAGMDSMKSDMGGAATVTGALALAITRGLNKRVKLFLCCAENLISGNAFKLGDIITYRNGKTVEVMN 271 (424)
T ss_pred ceEecCCCccCCCCcCHHHhhcchhHHHHHHHHHHHHHhcCCCceEEEEEEecccCCCCCCCCCCCEEEecCCcEEeeec
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCcccceehhhhhHHHHHhhhhcCCC-ceEEeeccchhhHhhhCCCeeEEeeCCcccHHHHHHHHHHHhhhhCCCcccCc
Q psy6043 157 TDAEGRFAMADVLAHMAEKAKDAVNP-HLFTIATLTGHACLTVGEGYSIVMDNGPARQENNAVLLSETGEAMGDPFEISR 235 (282)
Q Consensus 157 TDAEGRLvLADaL~ya~~~~~~~~~p-~iIDiATLTGa~~~ALG~~~ag~~~n~~~~~~~l~~~l~~ag~~~ge~~w~~p 235 (282)
|||||||||||+|+||++ ++| .|||+|||||||++|||++|+|+|+||+ +++++++++|+++||++||||
T Consensus 272 TDAEGRLVLAD~L~yA~~-----~~p~~IID~ATLTGA~~~ALG~~~agvfsndd----~l~~~l~~a~~~~gE~~WrLP 342 (424)
T PRK05015 272 TDAEGRLVLADGLIDASE-----QGPPLIIDAATLTGAAKTALGNDYHALFSFDD----ELAQRLLASAAQENEPFWRLP 342 (424)
T ss_pred cCccceeeehhHHHHhhh-----cCCCEEEEeeccchhhHhhhCCCceeeecCCH----HHHHHHHHHHHHhCCceeecC
Confidence 999999999999999974 588 7999999999999999999999999985 699999999999999999999
Q ss_pred CCchhhhhccCCCCchhhhCCCCCCCCCCCCCchHHHHHHhhhhC
Q psy6043 236 IRREDFRFFKSKCEGEDLIQSGMKSSGSNSRGHQGPGAFLIGASG 280 (282)
Q Consensus 236 l~~~~~~~~~~~s~~ADl~n~~~~~~~~~~~g~~~aAaFL~~~s~ 280 (282)
+. + +++..++|++|||+|++. +.+.+|+|+||+||++|..
T Consensus 343 l~-~-~~~~~l~S~~ADl~N~~~---~~~~aGa~tAA~FL~~Fv~ 382 (424)
T PRK05015 343 LA-E-FHRSQLPSNFADLANSGS---GAGPAGASTAAGFLSHFVE 382 (424)
T ss_pred CC-H-HHHHhcCCCcchhcCCCC---CCCCCCchHHHHHHHHHcC
Confidence 95 3 445778999999999863 2346899999999999963
No 7
>KOG2597|consensus
Probab=100.00 E-value=1.2e-88 Score=668.15 Aligned_cols=261 Identities=31% Similarity=0.419 Sum_probs=249.5
Q ss_pred CCcHHHHHHHHHhhcCCCCeEEEEecchHHHhccCChhhHhhhccCCCCCCCceEEEEEecCCCCCCCCceEeeccceEE
Q psy6043 1 MAPPKVEEYILETFKNTPSIKINIIKDPKILDKEYPLFSAVNRAASVIDRHQGRVIFLEYEPTSSSPTSSLFLVGKGVTY 80 (282)
Q Consensus 1 MtP~~~a~~~~~~~~~~~~v~v~v~~~~~~~~~gm~~~laVg~gS~~~s~~~p~~v~l~Y~~~~~~~~~~iaLVGKGiTF 80 (282)
|||+.|+|++++.+++.+ ++++|++++|+++++|++|++|++||+ |||+|++|+|+|.. .+.++|+||||||||
T Consensus 206 Mtp~~fae~a~~~~~~~~-v~v~V~~~~~i~~~~~~~~l~V~k~s~----~pP~ll~lsY~g~~-~~~~~i~lvGKGvtf 279 (513)
T KOG2597|consen 206 MTPTQFAEEAVDVLCPLG-VTVEVRDEEWIEEQGMNSFLAVAKASC----EPPRLLELSYKGTS-GADKTILLVGKGVTF 279 (513)
T ss_pred cCHHHHHHHHHHhhcccC-ceEEEechHHHhhccccceeeeccccC----CCCEEEEEEEcCCC-CCcceEEEEecceEE
Confidence 899999999999999999 999999999999999999999999986 89999999999997 678999999999999
Q ss_pred ccCCCCCCCCCCcccCccCcchHHHHHHHHHHHHhcCCCeEEEEeeeeeccCCCCCCCCCCceEEccCCeEEEecCCCcc
Q psy6043 81 DTGGADIKISGNMAGMARDKCGAAVVAGFMKAVAMLQPKVRVVGALAVVRNSCGENSYVSDEVVVSRAGKRIRVTNTDAE 160 (282)
Q Consensus 81 DsGG~slKp~~~M~~Mk~DM~GAAaV~ga~~a~a~l~~~vnV~~il~~~EN~i~~~a~~pgDVi~s~~GkTVEI~NTDAE 160 (282)
||||+||||+.+|.+||.||+|||+|+|+++|++++++|+||++++|+|||||||+|+|||||||++|||||||.|||||
T Consensus 280 DsGGl~iK~~~~M~~mr~dm~GAA~v~~~~~a~~~l~~~in~~~v~plcENm~sg~A~kpgDVit~~nGKtveI~NTDAE 359 (513)
T KOG2597|consen 280 DSGGLSIKPKTGMDGMRRDMGGAAVVLGAFRAAAQLSLPINVHAVLPLCENMPSGNATKPGDVITLRNGKTVEINNTDAE 359 (513)
T ss_pred ecCccccccCCChhhhhhhccccHHHHHHHHHHHhcCCCCceEEEEeeeccCCCccCCCCCcEEEecCCcEEEecccCcc
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cceehhhhhHHHHHhhhhcCCC-ceEEeeccchhhHhhhCCCeeEEeeCCcccHHHHHHHHHHHhhhhCCCcccCcCCch
Q psy6043 161 GRFAMADVLAHMAEKAKDAVNP-HLFTIATLTGHACLTVGEGYSIVMDNGPARQENNAVLLSETGEAMGDPFEISRIRRE 239 (282)
Q Consensus 161 GRLvLADaL~ya~~~~~~~~~p-~iIDiATLTGa~~~ALG~~~ag~~~n~~~~~~~l~~~l~~ag~~~ge~~w~~pl~~~ 239 (282)
|||+|||+|.||++ .|+| +|||+|||||++.+|||+.++|+|||++ .||+++++||.++|||+||||| ++
T Consensus 360 GRLiLADaL~Ya~~----~~~~~~I~d~aTLTGa~~ialG~~~~gi~Tns~----~l~k~~~~Ag~~tGD~vwrmpl-f~ 430 (513)
T KOG2597|consen 360 GRLVLADALLYAQE----TLKPKLIVDIATLTGAMRIALGEGAAGIFTNSE----ELWKRLQKAGIETGDRVWRMPL-FS 430 (513)
T ss_pred ceEEeccHHHHhhh----hcCCCEEEEeccchhhhHhhcCccceEEEcChH----HHHHHHHHHHHhhCCceeechH-HH
Confidence 99999999999986 3788 7999999999999999999999999994 6999999999999999999998 77
Q ss_pred hhhhccCCCCchhhhCCCCCCCCCCCCCchHHHHHHhhhhC
Q psy6043 240 DFRFFKSKCEGEDLIQSGMKSSGSNSRGHQGPGAFLIGASG 280 (282)
Q Consensus 240 ~~~~~~~~s~~ADl~n~~~~~~~~~~~g~~~aAaFL~~~s~ 280 (282)
+|+....++..+|++|.++.+ +.+ ||+|||||+.|++
T Consensus 431 ~~~~~v~~~~~~D~~n~g~~~---~s~-~~~aAAfL~~~v~ 467 (513)
T KOG2597|consen 431 YYYKAVADSGLADLNNTGSGR---ASR-SCTAAAFLKEFVP 467 (513)
T ss_pred HHHHHHhccchhhhccCCCCC---Ccc-hhHHHHHHHhhcC
Confidence 888888999999999988543 223 9999999999998
No 8
>PF13180 PDZ_2: PDZ domain; PDB: 2L97_A 1Y8T_A 2Z9I_A 1LCY_A 2PZD_B 2P3W_A 1VCW_C 1TE0_B 1SOZ_C 1SOT_C ....
Probab=78.49 E-value=0.75 Score=34.58 Aligned_cols=27 Identities=15% Similarity=0.378 Sum_probs=22.3
Q ss_pred eeeeccCCCCCC-CCCCceEEccCCeEE
Q psy6043 126 LAVVRNSCGENS-YVSDEVVVSRAGKRI 152 (282)
Q Consensus 126 l~~~EN~i~~~a-~~pgDVi~s~~GkTV 152 (282)
.-..+|.|...+ +++||+|.+.||+.|
T Consensus 19 ~~V~~~spA~~aGl~~GD~I~~ing~~v 46 (82)
T PF13180_consen 19 VSVIPGSPAAKAGLQPGDIILAINGKPV 46 (82)
T ss_dssp EEESTTSHHHHTTS-TTEEEEEETTEES
T ss_pred EEeCCCCcHHHCCCCCCcEEEEECCEEc
Confidence 346678887777 999999999999999
No 9
>cd00986 PDZ_LON_protease PDZ domain of ATP-dependent LON serine proteases. Most PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated. In this bacterial subfamily of protease-associated PDZ domains a C-terminal beta-strand is thought to form the peptide-binding groove base, a circular permutation with respect to PDZ domains found in Eumetazoan signaling proteins.
Probab=77.49 E-value=2.5 Score=31.36 Aligned_cols=26 Identities=15% Similarity=0.282 Sum_probs=22.1
Q ss_pred eeccCCCCCCCCCCceEEccCCeEEE
Q psy6043 128 VVRNSCGENSYVSDEVVVSRAGKRIR 153 (282)
Q Consensus 128 ~~EN~i~~~a~~pgDVi~s~~GkTVE 153 (282)
+.+|.+....+++||+|.+.||++|.
T Consensus 15 V~~~s~A~~gL~~GD~I~~Ing~~v~ 40 (79)
T cd00986 15 VVEGMPAAGKLKAGDHIIAVDGKPFK 40 (79)
T ss_pred ECCCCchhhCCCCCCEEEEECCEECC
Confidence 45787777789999999999999874
No 10
>cd00991 PDZ_archaeal_metalloprotease PDZ domain of archaeal zinc metalloprotases, presumably membrane-associated or integral membrane proteases, which may be involved in signalling and regulatory mechanisms. May be responsible for substrate recognition and/or binding, as most PDZ domains bind C-terminal polypeptides, and binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated. In this subfamily of protease-associated PDZ domains a C-terminal beta-strand forms the peptide-binding groove base, a circular permutation with respect to PDZ domains found in Eumetazoan signaling proteins.
Probab=71.65 E-value=3.2 Score=31.06 Aligned_cols=27 Identities=30% Similarity=0.375 Sum_probs=22.2
Q ss_pred eeeccCCCCCC-CCCCceEEccCCeEEE
Q psy6043 127 AVVRNSCGENS-YVSDEVVVSRAGKRIR 153 (282)
Q Consensus 127 ~~~EN~i~~~a-~~pgDVi~s~~GkTVE 153 (282)
-..+|.|...+ +++||+|.+.||+.|.
T Consensus 16 ~V~~~spa~~aGL~~GDiI~~Ing~~v~ 43 (79)
T cd00991 16 GVIVGSPAENAVLHTGDVIYSINGTPIT 43 (79)
T ss_pred EECCCChHHhcCCCCCCEEEEECCEEcC
Confidence 34578777754 9999999999999886
No 11
>PRK08596 acetylornithine deacetylase; Validated
Probab=68.94 E-value=28 Score=33.84 Aligned_cols=101 Identities=15% Similarity=0.134 Sum_probs=58.5
Q ss_pred HHHHHHHHhhcCCCCeEEEEecchHHHhccCChhhHhhhccCCCCCCCceEEEEEecCC---CCC--C-CCce-------
Q psy6043 5 KVEEYILETFKNTPSIKINIIKDPKILDKEYPLFSAVNRAASVIDRHQGRVIFLEYEPT---SSS--P-TSSL------- 71 (282)
Q Consensus 5 ~~a~~~~~~~~~~~~v~v~v~~~~~~~~~gm~~~laVg~gS~~~s~~~p~~v~l~Y~~~---~~~--~-~~~i------- 71 (282)
.+++++++.|++.+ +++++.+..+ +.+.+++.-+|+. +..+|+++...+-.. +.. . ..|.
T Consensus 37 ~~a~~l~~~l~~~G-~~~~~~~~~~----~~~nvia~~~g~~--~~~~~~lll~~H~DtVp~~~~~~W~~~Pf~~~~~~g 109 (421)
T PRK08596 37 EAQEFIAEFLRKLG-FSVDKWDVYP----NDPNVVGVKKGTE--SDAYKSLIINGHMDVAEVSADEAWETNPFEPTIKDG 109 (421)
T ss_pred HHHHHHHHHHHHCC-CeEEEEEccC----CCceEEEEecCCC--CCCCcEEEEeccccccCCCCccccccCCCCcEEECC
Confidence 46888999999998 8888764211 2344555544542 112355554443321 100 0 0111
Q ss_pred EeeccceEEccCCCCCCCCCCcccCccC-cchHHHHHHHHHHHHhcC--CCeEEEEeeeeecc
Q psy6043 72 FLVGKGVTYDTGGADIKISGNMAGMARD-KCGAAVVAGFMKAVAMLQ--PKVRVVGALAVVRN 131 (282)
Q Consensus 72 aLVGKGiTFDsGG~slKp~~~M~~Mk~D-M~GAAaV~ga~~a~a~l~--~~vnV~~il~~~EN 131 (282)
-|-|+|. .| ++|.|+.+.+++++.+.+ ++.+|+.++-.-|.
T Consensus 110 ~lyGrG~-------------------~D~Kgg~a~~l~a~~~l~~~~~~~~~~v~~~~~~dEE 153 (421)
T PRK08596 110 WLYGRGA-------------------ADMKGGLAGALFAIQLLHEAGIELPGDLIFQSVIGEE 153 (421)
T ss_pred EEEeccc-------------------cccchHHHHHHHHHHHHHHcCCCCCCcEEEEEEeccc
Confidence 1344442 34 567888999999998865 56788877777776
No 12
>PRK06837 acetylornithine deacetylase; Provisional
Probab=64.80 E-value=74 Score=30.98 Aligned_cols=23 Identities=4% Similarity=0.270 Sum_probs=18.2
Q ss_pred HHHHHHHHHhhcCCCCeEEEEecc
Q psy6043 4 PKVEEYILETFKNTPSIKINIIKD 27 (282)
Q Consensus 4 ~~~a~~~~~~~~~~~~v~v~v~~~ 27 (282)
...++++++.+++++ ++++++..
T Consensus 40 ~~~~~~l~~~l~~~G-~~~~~~~~ 62 (427)
T PRK06837 40 APCQDFLARAFRERG-YEVDRWSI 62 (427)
T ss_pred HHHHHHHHHHHHHCC-CceEEecC
Confidence 457888999999998 88887643
No 13
>TIGR01910 DapE-ArgE acetylornithine deacetylase or succinyl-diaminopimelate desuccinylase. This group of sequences contains annotations for both acetylornithine deacetylase and succinyl-diaminopimelate desuccinylase, but does not contain any members with experimental characterization. Bacillus, Staphylococcus and Sulfolobus species contain multiple hits to this subfamily and each may have a separate activity. Determining which is which must await further laboratory research.
Probab=64.51 E-value=31 Score=32.68 Aligned_cols=32 Identities=19% Similarity=0.154 Sum_probs=23.3
Q ss_pred cchHHHHHHHHHHHHhcC--CCeEEEEeeeeecc
Q psy6043 100 KCGAAVVAGFMKAVAMLQ--PKVRVVGALAVVRN 131 (282)
Q Consensus 100 M~GAAaV~ga~~a~a~l~--~~vnV~~il~~~EN 131 (282)
.+|.|+.+.+++++.+.+ ++.+|+-++-..|=
T Consensus 107 k~~~a~~l~a~~~l~~~~~~~~~~i~~~~~~~EE 140 (375)
T TIGR01910 107 KGGLVALLYALKAIREAGIKPNGNIILQSVVDEE 140 (375)
T ss_pred chHHHHHHHHHHHHHHcCCCCCccEEEEEEcCcc
Confidence 467889999999988764 55677766655553
No 14
>cd00990 PDZ_glycyl_aminopeptidase PDZ domain associated with archaeal and bacterial M61 glycyl-aminopeptidases. May be responsible for substrate recognition and/or binding, as most PDZ domains bind C-terminal polypeptides, and binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated. In this subfamily of protease-associated PDZ domains a C-terminal beta-strand is presumed to form the peptide-binding groove base, a circular permutation with respect to PDZ domains found in Eumetazoan signaling proteins.
Probab=63.97 E-value=4.7 Score=29.52 Aligned_cols=25 Identities=24% Similarity=0.372 Sum_probs=19.6
Q ss_pred eeccCCCCCC-CCCCceEEccCCeEE
Q psy6043 128 VVRNSCGENS-YVSDEVVVSRAGKRI 152 (282)
Q Consensus 128 ~~EN~i~~~a-~~pgDVi~s~~GkTV 152 (282)
..+|.+...+ ++|||+|++.||+.|
T Consensus 19 V~~~s~a~~aGl~~GD~I~~Ing~~v 44 (80)
T cd00990 19 VRDDSPADKAGLVAGDELVAVNGWRV 44 (80)
T ss_pred ECCCChHHHhCCCCCCEEEEECCEEh
Confidence 3466665544 999999999999976
No 15
>PRK09104 hypothetical protein; Validated
Probab=62.28 E-value=40 Score=33.25 Aligned_cols=101 Identities=14% Similarity=0.196 Sum_probs=55.4
Q ss_pred HHHHHHHHHhhcCCCCeEEEEecchHHHhccCChhhHhhhccCCCCCCCceEEEEEecCC---CC--CC-CCce------
Q psy6043 4 PKVEEYILETFKNTPSIKINIIKDPKILDKEYPLFSAVNRAASVIDRHQGRVIFLEYEPT---SS--SP-TSSL------ 71 (282)
Q Consensus 4 ~~~a~~~~~~~~~~~~v~v~v~~~~~~~~~gm~~~laVg~gS~~~s~~~p~~v~l~Y~~~---~~--~~-~~~i------ 71 (282)
..+++++++.+++.+ +++++++.. +-..+++.=+|+. ...|.++.+-+... +. .+ ..|.
T Consensus 43 ~~~~~~l~~~l~~~G-~~v~~~~~~-----~~~~l~a~~~g~~---~~~~~lll~gH~DvVp~~~~~~W~~~Pf~~~~~~ 113 (464)
T PRK09104 43 RKAADWLVADLASLG-FEASVRDTP-----GHPMVVAHHEGPT---GDAPHVLFYGHYDVQPVDPLDLWESPPFEPRIKE 113 (464)
T ss_pred HHHHHHHHHHHHHCC-CeEEEEecC-----CCCEEEEEecCCC---CCCCEEEEEecccCCCCCCcccCCCCCCcceEec
Confidence 357889999999998 999887521 2223333323321 12455555554321 10 00 0111
Q ss_pred ------EeeccceEEccCCCCCCCCCCcccCccCcchHHHHHHHHHHHHhcC--CCeEEEEeeeeecc
Q psy6043 72 ------FLVGKGVTYDTGGADIKISGNMAGMARDKCGAAVVAGFMKAVAMLQ--PKVRVVGALAVVRN 131 (282)
Q Consensus 72 ------aLVGKGiTFDsGG~slKp~~~M~~Mk~DM~GAAaV~ga~~a~a~l~--~~vnV~~il~~~EN 131 (282)
.|.|+|. --|++|.|+.+-+++++.+.+ +|.+|+-++..-|-
T Consensus 114 ~~~~~~~lyGRG~------------------~D~Kg~laa~l~a~~~l~~~~~~~~~~i~~~~~~dEE 163 (464)
T PRK09104 114 TPDGRKVIVARGA------------------SDDKGQLMTFVEACRAWKAVTGSLPVRVTILFEGEEE 163 (464)
T ss_pred CcCCcceEEEecc------------------cCCcHHHHHHHHHHHHHHHhcCCCCCcEEEEEECccc
Confidence 1455553 123466788888888888754 66787755555444
No 16
>PRK13983 diaminopimelate aminotransferase; Provisional
Probab=62.00 E-value=43 Score=31.71 Aligned_cols=32 Identities=22% Similarity=0.086 Sum_probs=22.9
Q ss_pred cchHHHHHHHHHHHHhcC--CCeEEEEeeeeecc
Q psy6043 100 KCGAAVVAGFMKAVAMLQ--PKVRVVGALAVVRN 131 (282)
Q Consensus 100 M~GAAaV~ga~~a~a~l~--~~vnV~~il~~~EN 131 (282)
++|.++.+-+++++.+.+ ++.+|.-++..-|=
T Consensus 119 K~g~~a~l~a~~~l~~~~~~~~~~v~~~~~~dEE 152 (400)
T PRK13983 119 GQGIVSSLLALKALMDLGIRPKYNLGLAFVSDEE 152 (400)
T ss_pred cchHHHHHHHHHHHHHhCCCCCCcEEEEEEeccc
Confidence 388888888888888765 55677666665554
No 17
>cd00989 PDZ_metalloprotease PDZ domain of bacterial and plant zinc metalloprotases, presumably membrane-associated or integral membrane proteases, which may be involved in signalling and regulatory mechanisms. May be responsible for substrate recognition and/or binding, as most PDZ domains bind C-terminal polypeptides, and binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated. In this subfamily of protease-associated PDZ domains a C-terminal beta-strand forms the peptide-binding groove base, a circular permutation with respect to PDZ domains found in Eumetazoan signaling proteins.
Probab=61.74 E-value=4.1 Score=29.62 Aligned_cols=25 Identities=16% Similarity=0.340 Sum_probs=19.6
Q ss_pred eccCCCCCC-CCCCceEEccCCeEEE
Q psy6043 129 VRNSCGENS-YVSDEVVVSRAGKRIR 153 (282)
Q Consensus 129 ~EN~i~~~a-~~pgDVi~s~~GkTVE 153 (282)
.+|.+...+ +++||+|++.||+.|.
T Consensus 20 ~~~s~a~~~gl~~GD~I~~ing~~i~ 45 (79)
T cd00989 20 VPGSPAAKAGLKAGDRILAINGQKIK 45 (79)
T ss_pred CCCCHHHHcCCCCCCEEEEECCEECC
Confidence 466665533 9999999999999764
No 18
>PRK07906 hypothetical protein; Provisional
Probab=60.38 E-value=36 Score=32.98 Aligned_cols=100 Identities=14% Similarity=0.143 Sum_probs=56.1
Q ss_pred HHHHHHHHhhcCCCCeEEEEecchHHHhccCChhhHhhhccCCCCCCCceEEEEEecC---CCC-CC-CCc-------eE
Q psy6043 5 KVEEYILETFKNTPSIKINIIKDPKILDKEYPLFSAVNRAASVIDRHQGRVIFLEYEP---TSS-SP-TSS-------LF 72 (282)
Q Consensus 5 ~~a~~~~~~~~~~~~v~v~v~~~~~~~~~gm~~~laVg~gS~~~s~~~p~~v~l~Y~~---~~~-~~-~~~-------ia 72 (282)
..++++++.++..+ +++++.+.. .+.+.+++.-+|+. ...|.++...+-. ... .+ ..| =-
T Consensus 26 ~~~~~l~~~l~~~G-~~~~~~~~~----~~~~nv~~~~~g~~---~~~~~lll~~H~DtVp~~~~~W~~~Pf~~~~~dg~ 97 (426)
T PRK07906 26 EAAEYVAEKLAEVG-LEPTYLESA----PGRANVVARLPGAD---PSRPALLVHGHLDVVPAEAADWSVHPFSGEIRDGY 97 (426)
T ss_pred HHHHHHHHHHHhCC-CCeEEeecC----CCceEEEEEEeCCC---CCCCcEEEEcccccCCCCcccCccCCCCceeeCCE
Confidence 57889999999999 888876421 23344555544542 1224454443321 110 00 011 13
Q ss_pred eeccceEEccCCCCCCCCCCcccCccCcchHHHHHHHHHHHHhcC--CCeEEEEeeeeec
Q psy6043 73 LVGKGVTYDTGGADIKISGNMAGMARDKCGAAVVAGFMKAVAMLQ--PKVRVVGALAVVR 130 (282)
Q Consensus 73 LVGKGiTFDsGG~slKp~~~M~~Mk~DM~GAAaV~ga~~a~a~l~--~~vnV~~il~~~E 130 (282)
+-|+|.+ +| ++|.|+.+.+++++.+.+ ++.+|+-++-.-|
T Consensus 98 iyGrG~~---------------D~---Kg~~a~~l~a~~~l~~~~~~~~~~i~~~~~~dE 139 (426)
T PRK07906 98 VWGRGAV---------------DM---KDMDAMMLAVVRHLARTGRRPPRDLVFAFVADE 139 (426)
T ss_pred EEecCcc---------------cc---chHHHHHHHHHHHHHHcCCCCCccEEEEEecCc
Confidence 4555543 23 457888899999988765 4567765555544
No 19
>PRK10199 alkaline phosphatase isozyme conversion aminopeptidase; Provisional
Probab=59.13 E-value=1.1e+02 Score=30.22 Aligned_cols=33 Identities=9% Similarity=0.083 Sum_probs=23.7
Q ss_pred cCc-chHHHHHHHHHHHHhcCCCeEEEEeeeeec
Q psy6043 98 RDK-CGAAVVAGFMKAVAMLQPKVRVVGALAVVR 130 (282)
Q Consensus 98 ~DM-~GAAaV~ga~~a~a~l~~~vnV~~il~~~E 130 (282)
.|| +|.|+++-+++++.+.+++.+|+.+.-..|
T Consensus 142 ~DnasGvA~lLe~ar~l~~~~~~~~I~fv~~~~E 175 (346)
T PRK10199 142 DDNAAGLGVMLELAERLKNVPTEYGIRFVATSGE 175 (346)
T ss_pred cccHHHHHHHHHHHHHHhhCCCCCcEEEEEECCc
Confidence 466 889999999999988776666654444333
No 20
>PRK08652 acetylornithine deacetylase; Provisional
Probab=58.85 E-value=48 Score=30.70 Aligned_cols=98 Identities=12% Similarity=0.089 Sum_probs=49.9
Q ss_pred HHHHHHHHHhhcCCCCeEEEEecchHHHhccCChhhHhhhccCCCCCCCceEEEEE-ecCCCCCCCCceEeeccceEEcc
Q psy6043 4 PKVEEYILETFKNTPSIKINIIKDPKILDKEYPLFSAVNRAASVIDRHQGRVIFLE-YEPTSSSPTSSLFLVGKGVTYDT 82 (282)
Q Consensus 4 ~~~a~~~~~~~~~~~~v~v~v~~~~~~~~~gm~~~laVg~gS~~~s~~~p~~v~l~-Y~~~~~~~~~~iaLVGKGiTFDs 82 (282)
...++++.+.+++++ +++++..... ...+++ ++ .|.++... |.--+ ...++. .+
T Consensus 22 ~~~~~~l~~~l~~~G-~~v~~~~~~~-----~~~~~~---~~------~~~i~l~~H~D~vp-~~~~~~--------~~- 76 (347)
T PRK08652 22 DEIALHIMEFLESLG-YDVHIESDGE-----VINIVV---NS------KAELFVEVHYDTVP-VRAEFF--------VD- 76 (347)
T ss_pred HHHHHHHHHHHHHcC-CEEEEEecCc-----eeEEEc---CC------CCEEEEEccccccC-CCCCCE--------EE-
Confidence 357889999999999 8888753221 222333 22 24444433 33222 111221 11
Q ss_pred CCCCCCCCCCcccCccCcchHHHHHHHHHHHHhcCCCeEEEEeeeeecc
Q psy6043 83 GGADIKISGNMAGMARDKCGAAVVAGFMKAVAMLQPKVRVVGALAVVRN 131 (282)
Q Consensus 83 GG~slKp~~~M~~Mk~DM~GAAaV~ga~~a~a~l~~~vnV~~il~~~EN 131 (282)
||.-..+ +-. -+.+|.|+++.+++++.+..++.+|+-++..-|-
T Consensus 77 ~g~iyGr--G~~---D~Kg~~a~~l~a~~~l~~~~~~~~v~~~~~~dEE 120 (347)
T PRK08652 77 GVYVYGT--GAC---DAKGGVAAILLALEELGKEFEDLNVGIAFVSDEE 120 (347)
T ss_pred CCEEEec--cch---hhhHHHHHHHHHHHHHhhcccCCCEEEEEecCcc
Confidence 2211111 112 2357788888999988765444344444444555
No 21
>PRK04443 acetyl-lysine deacetylase; Provisional
Probab=57.76 E-value=53 Score=30.93 Aligned_cols=92 Identities=16% Similarity=0.073 Sum_probs=50.7
Q ss_pred HHHHHHHHHhhcCCCCeEEEEecchHHHhccCChhhHhhhccCCCCCCCceEEEEEecCCCCCCCCce-----Eeeccce
Q psy6043 4 PKVEEYILETFKNTPSIKINIIKDPKILDKEYPLFSAVNRAASVIDRHQGRVIFLEYEPTSSSPTSSL-----FLVGKGV 78 (282)
Q Consensus 4 ~~~a~~~~~~~~~~~~v~v~v~~~~~~~~~gm~~~laVg~gS~~~s~~~p~~v~l~Y~~~~~~~~~~i-----aLVGKGi 78 (282)
...++++.+.+++.+ +++++... +.+++. .|. .+|.++...+...- +...|. -+-|+|.
T Consensus 26 ~~~~~~l~~~l~~~G-~~~~~~~~--------~n~i~~-~~~-----~~~~l~~~~H~DtV-p~~~p~~~~~g~iyGrG~ 89 (348)
T PRK04443 26 AAAAEFLVEFMESHG-REAWVDEA--------GNARGP-AGD-----GPPLVLLLGHIDTV-PGDIPVRVEDGVLWGRGS 89 (348)
T ss_pred HHHHHHHHHHHHHcC-CEEEEcCC--------CcEEEE-cCC-----CCCEEEEEeecccc-CCCCCcEeeCCeEEeecc
Confidence 367889999999998 88876421 223332 232 23666655544322 111121 2333332
Q ss_pred EEccCCCCCCCCCCcccCccCcchHHHHHHHHHHHHhcCCCeEEEEeeeeec
Q psy6043 79 TYDTGGADIKISGNMAGMARDKCGAAVVAGFMKAVAMLQPKVRVVGALAVVR 130 (282)
Q Consensus 79 TFDsGG~slKp~~~M~~Mk~DM~GAAaV~ga~~a~a~l~~~vnV~~il~~~E 130 (282)
+ + |++|.|+.+-+++++ +.+++.+|+-++..-|
T Consensus 90 ~---------------D---~Kg~~aa~l~A~~~l-~~~~~~~i~~~~~~dE 122 (348)
T PRK04443 90 V---------------D---AKGPLAAFAAAAARL-EALVRARVSFVGAVEE 122 (348)
T ss_pred c---------------c---cccHHHHHHHHHHHh-cccCCCCEEEEEEccc
Confidence 2 2 345788888888888 6666766665554444
No 22
>cd00988 PDZ_CTP_protease PDZ domain of C-terminal processing-, tail-specific-, and tricorn proteases, which function in posttranslational protein processing, maturation, and disassembly or degradation, in Bacteria, Archaea, and plant chloroplasts. May be responsible for substrate recognition and/or binding, as most PDZ domains bind C-terminal polypeptides, and binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated. In this subfamily of protease-associated PDZ domains a C-terminal beta-strand forms the peptide-binding groove base, a circular permutation with respect to PDZ domains found in Eumetazoan signaling proteins.
Probab=56.82 E-value=9.8 Score=28.06 Aligned_cols=26 Identities=15% Similarity=0.336 Sum_probs=20.3
Q ss_pred eeeccCCCCC-CCCCCceEEccCCeEE
Q psy6043 127 AVVRNSCGEN-SYVSDEVVVSRAGKRI 152 (282)
Q Consensus 127 ~~~EN~i~~~-a~~pgDVi~s~~GkTV 152 (282)
...+|.|... -++|||+|++.||+.|
T Consensus 19 ~v~~~s~a~~~gl~~GD~I~~vng~~i 45 (85)
T cd00988 19 SVLPGSPAAKAGIKAGDIIVAIDGEPV 45 (85)
T ss_pred EecCCCCHHHcCCCCCCEEEEECCEEc
Confidence 3456666655 4899999999999976
No 23
>cd00136 PDZ PDZ domain, also called DHR (Dlg homologous region) or GLGF (after a conserved sequence motif). Many PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated. Heterodimerization through PDZ-PDZ domain interactions adds to the domain's versatility, and PDZ domain-mediated interactions may be modulated dynamically through target phosphorylation. Some PDZ domains play a role in scaffolding supramolecular complexes. PDZ domains are found in diverse signaling proteins in bacteria, archebacteria, and eurkayotes. This CD contains two distinct structural subgroups with either a N- or C-terminal beta-strand forming the peptide-binding groove base. The circular permutation placing the strand on the N-terminus appears to be found in Eumetazoa only, while the C-terminal variant is found in all three kingdoms of life, and seems to co-occur with protease domains. PDZ domains have been named after PSD95(pos
Probab=56.54 E-value=7.6 Score=27.55 Aligned_cols=27 Identities=19% Similarity=0.343 Sum_probs=21.0
Q ss_pred eeeccCCCCC-CCCCCceEEccCCeEEE
Q psy6043 127 AVVRNSCGEN-SYVSDEVVVSRAGKRIR 153 (282)
Q Consensus 127 ~~~EN~i~~~-a~~pgDVi~s~~GkTVE 153 (282)
.+.+|.|... .++|||+|.+.||+.|.
T Consensus 19 ~v~~~s~a~~~gl~~GD~I~~Ing~~v~ 46 (70)
T cd00136 19 SVEPGSPAERAGLQAGDVILAVNGTDVK 46 (70)
T ss_pred EeCCCCHHHHcCCCCCCEEEEECCEECC
Confidence 3356766665 49999999999999763
No 24
>cd00987 PDZ_serine_protease PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated. In this subfamily of protease-associated PDZ domains a C-terminal beta-strand forms the peptide-binding groove base, a circular permutation with respect to PDZ domains found in Eumetazoan signaling proteins.
Probab=53.98 E-value=8.4 Score=28.51 Aligned_cols=25 Identities=16% Similarity=0.278 Sum_probs=19.0
Q ss_pred eccCCCCC-CCCCCceEEccCCeEEE
Q psy6043 129 VRNSCGEN-SYVSDEVVVSRAGKRIR 153 (282)
Q Consensus 129 ~EN~i~~~-a~~pgDVi~s~~GkTVE 153 (282)
.+|.+... -++|||+|++.||+.|.
T Consensus 32 ~~~s~a~~~gl~~GD~I~~Ing~~i~ 57 (90)
T cd00987 32 DPGSPAAKAGLKPGDVILAVNGKPVK 57 (90)
T ss_pred CCCCHHHHcCCCcCCEEEEECCEECC
Confidence 45655543 38999999999999873
No 25
>PRK12891 allantoate amidohydrolase; Reviewed
Probab=53.82 E-value=81 Score=30.65 Aligned_cols=88 Identities=8% Similarity=-0.042 Sum_probs=47.0
Q ss_pred HHHHHHHHhhcCCCCeEEEEecchHHHhccCChhhHhhhccCCCCCCCceEEEEEecCCCCCCCCceEeeccceEEccCC
Q psy6043 5 KVEEYILETFKNTPSIKINIIKDPKILDKEYPLFSAVNRAASVIDRHQGRVIFLEYEPTSSSPTSSLFLVGKGVTYDTGG 84 (282)
Q Consensus 5 ~~a~~~~~~~~~~~~v~v~v~~~~~~~~~gm~~~laVg~gS~~~s~~~p~~v~l~Y~~~~~~~~~~iaLVGKGiTFDsGG 84 (282)
..++++++.+++.+ ++|++... +-+++.=.|+. ...|.++...+-..= -+ ||
T Consensus 41 ~~~~~l~~~l~~~G-~~v~~~~~--------gNl~a~~~g~~---~~~~~l~~~~H~DtV--------p~--------gg 92 (414)
T PRK12891 41 EARDLFVAWARDAG-CTVRVDAM--------GNLFARRAGRD---PDAAPVMTGSHADSQ--------PT--------GG 92 (414)
T ss_pred HHHHHHHHHHHHCC-CEEEECCC--------CCEEEEecCCC---CCCCeEEEEecccCC--------CC--------Cc
Confidence 46788888899998 88887421 12333223321 112455554443221 00 12
Q ss_pred CCCCCCCCcccCccCcchHHHHHHHHHHHHhcCCC--eEEEEeeeeecc
Q psy6043 85 ADIKISGNMAGMARDKCGAAVVAGFMKAVAMLQPK--VRVVGALAVVRN 131 (282)
Q Consensus 85 ~slKp~~~M~~Mk~DM~GAAaV~ga~~a~a~l~~~--vnV~~il~~~EN 131 (282)
..+| ++|.++.+.+++++.+.+.+ .+|.-+.-.-|=
T Consensus 93 --------~~D~---k~Gv~a~l~a~~~l~~~~~~~~~~i~v~~~~dEE 130 (414)
T PRK12891 93 --------RYDG---IYGVLGGLEVVRALNDAGIETERPVDVVIWTNEE 130 (414)
T ss_pred --------cccc---hhhHHHHHHHHHHHHHcCCCCCCCeEEEEecccc
Confidence 1123 46788888888888877643 344434444454
No 26
>PRK07522 acetylornithine deacetylase; Provisional
Probab=53.75 E-value=73 Score=30.09 Aligned_cols=106 Identities=13% Similarity=0.139 Sum_probs=53.8
Q ss_pred HHHHHHHHhhcCCCCeEEEEecchHHHhccCChhhHhhhccCCCCCCCceEEEEEecCC---CCC--CCCceE-eeccce
Q psy6043 5 KVEEYILETFKNTPSIKINIIKDPKILDKEYPLFSAVNRAASVIDRHQGRVIFLEYEPT---SSS--PTSSLF-LVGKGV 78 (282)
Q Consensus 5 ~~a~~~~~~~~~~~~v~v~v~~~~~~~~~gm~~~laVg~gS~~~s~~~p~~v~l~Y~~~---~~~--~~~~ia-LVGKGi 78 (282)
.+++++.+.+++++ ++++++...+ .+-+.+++.-.+. ..|.++...+-.. ..+ ...|.. .+-.|.
T Consensus 26 ~~~~~l~~~l~~~G-~~~~~~~~~~---~~~~nv~a~~~~~-----~~~~ill~~H~Dtv~~~~~~W~~~pf~~~~~~g~ 96 (385)
T PRK07522 26 ALIEWVRDYLAAHG-VESELIPDPE---GDKANLFATIGPA-----DRGGIVLSGHTDVVPVDGQAWTSDPFRLTERDGR 96 (385)
T ss_pred HHHHHHHHHHHHcC-CeEEEEecCC---CCcccEEEEeCCC-----CCCeEEEEeecccccCCCCCCCCCCCceEEECCE
Confidence 78899999999999 9888764221 1112233322221 2355554444321 100 011221 112222
Q ss_pred EEccCCCCCCCCCCcccCccCcchHHHHHHHHHHHHhcCCCeEEEEeeeeecc
Q psy6043 79 TYDTGGADIKISGNMAGMARDKCGAAVVAGFMKAVAMLQPKVRVVGALAVVRN 131 (282)
Q Consensus 79 TFDsGG~slKp~~~M~~Mk~DM~GAAaV~ga~~a~a~l~~~vnV~~il~~~EN 131 (282)
.|=-|-. -|.+|.|+.+.+++++.+.+++-+|.-++...|-
T Consensus 97 i~GrG~~------------D~Kg~~a~~l~a~~~l~~~~~~~~i~~~~~~dEE 137 (385)
T PRK07522 97 LYGRGTC------------DMKGFIAAALAAVPELAAAPLRRPLHLAFSYDEE 137 (385)
T ss_pred EEecccc------------ccchHHHHHHHHHHHHHhCCCCCCEEEEEEeccc
Confidence 2222110 1245778888999998887666556555555553
No 27
>PRK06133 glutamate carboxypeptidase; Reviewed
Probab=53.71 E-value=1e+02 Score=29.92 Aligned_cols=105 Identities=14% Similarity=0.130 Sum_probs=56.2
Q ss_pred HHHHHHHHhhcCCCCeEEEEecchHHHhccCChhhHhhhccCCCCCCCceEEEEEecCC-C--CC-CCCceEeeccceEE
Q psy6043 5 KVEEYILETFKNTPSIKINIIKDPKILDKEYPLFSAVNRAASVIDRHQGRVIFLEYEPT-S--SS-PTSSLFLVGKGVTY 80 (282)
Q Consensus 5 ~~a~~~~~~~~~~~~v~v~v~~~~~~~~~gm~~~laVg~gS~~~s~~~p~~v~l~Y~~~-~--~~-~~~~iaLVGKGiTF 80 (282)
+.++++++.+++++ +++++....+ .+-+.+++.=.|+. +|.++...+-.. + .. ...|....
T Consensus 61 ~~~~~l~~~L~~~G-~~v~~~~~~~---~~~~~lia~~~g~~-----~~~ill~~H~D~Vp~~~~w~~~Pf~~~------ 125 (410)
T PRK06133 61 QVAALLAERLKALG-AKVERAPTPP---SAGDMVVATFKGTG-----KRRIMLIAHMDTVYLPGMLAKQPFRID------ 125 (410)
T ss_pred HHHHHHHHHHHhCC-CeEEEEccCC---CCCCeEEEEECCCC-----CceEEEEeecCccCCCCccCCCCEEEE------
Confidence 58899999999998 8887754211 11234555433431 344444443221 1 00 12333211
Q ss_pred ccCCCCCCCCCCcccCccCcchHHHHHHHHHHHHhcCC--CeEEEEeeeeecc
Q psy6043 81 DTGGADIKISGNMAGMARDKCGAAVVAGFMKAVAMLQP--KVRVVGALAVVRN 131 (282)
Q Consensus 81 DsGG~slKp~~~M~~Mk~DM~GAAaV~ga~~a~a~l~~--~vnV~~il~~~EN 131 (282)
|| .|. +.+..+|| +|.|+.+.+++++.+.+. +.+|+.++-..|-
T Consensus 126 --~~-~iy-GrG~~D~k---gg~a~~l~a~~~l~~~~~~~~~~i~~~~~~dEE 171 (410)
T PRK06133 126 --GD-RAY-GPGIADDK---GGVAVILHALKILQQLGFKDYGTLTVLFNPDEE 171 (410)
T ss_pred --CC-EEE-CCccccch---HHHHHHHHHHHHHHHcCCCCCCCEEEEEECCcc
Confidence 12 111 12223444 678888899999988764 3677666655554
No 28
>KOG0438|consensus
Probab=53.69 E-value=25 Score=34.19 Aligned_cols=23 Identities=39% Similarity=0.709 Sum_probs=18.4
Q ss_pred CceEEEEEecCCCCCCCCceEeeccc
Q psy6043 52 QGRVIFLEYEPTSSSPTSSLFLVGKG 77 (282)
Q Consensus 52 ~p~~v~l~Y~~~~~~~~~~iaLVGKG 77 (282)
.-+++.++|.|.. ..+|+||=.|
T Consensus 102 ~e~v~~i~yDP~R---s~~iaLv~~~ 124 (312)
T KOG0438|consen 102 EERVIEIEYDPGR---SAKIALVAGG 124 (312)
T ss_pred cceEEEEEECCCc---cccEEEEecc
Confidence 3499999999986 3578998777
No 29
>TIGR01892 AcOrn-deacetyl acetylornithine deacetylase (ArgE). This model represents a clade of acetylornithine deacetylases from proteobacteria. This enzyme is the final step of the "acetylated" ornithine biosynthesis pathway. The enzyme is closely related to dapE, succinyl-diaminopimelate desuccinylase, and outside of this clade annotation is very inaccurate as to which function should be ascribed to genes.
Probab=51.90 E-value=64 Score=30.09 Aligned_cols=32 Identities=22% Similarity=-0.046 Sum_probs=22.6
Q ss_pred cchHHHHHHHHHHHHhcCCCeEEEEeeeeecc
Q psy6043 100 KCGAAVVAGFMKAVAMLQPKVRVVGALAVVRN 131 (282)
Q Consensus 100 M~GAAaV~ga~~a~a~l~~~vnV~~il~~~EN 131 (282)
++|.|+.+.+++++.+.+++-+|.-++-..|-
T Consensus 100 Kg~~a~~l~a~~~l~~~~~~~~v~~~~~~~EE 131 (364)
T TIGR01892 100 KGFLACALAAAPDLAAEQLKKPLHLALTADEE 131 (364)
T ss_pred chHHHHHHHHHHHHHhcCcCCCEEEEEEeccc
Confidence 45789999999999876666566555555453
No 30
>cd00992 PDZ_signaling PDZ domain found in a variety of Eumetazoan signaling molecules, often in tandem arrangements. May be responsible for specific protein-protein interactions, as most PDZ domains bind C-terminal polypeptides, and binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated. In this subfamily of PDZ domains an N-terminal beta-strand forms the peptide-binding groove base, a circular permutation with respect to PDZ domains found in proteases.
Probab=51.08 E-value=14 Score=26.81 Aligned_cols=25 Identities=8% Similarity=0.116 Sum_probs=19.1
Q ss_pred eccCCCCC-CCCCCceEEccCCeEEE
Q psy6043 129 VRNSCGEN-SYVSDEVVVSRAGKRIR 153 (282)
Q Consensus 129 ~EN~i~~~-a~~pgDVi~s~~GkTVE 153 (282)
.+|.+... .++|||+|.+.||+.++
T Consensus 34 ~~~s~a~~~gl~~GD~I~~ing~~i~ 59 (82)
T cd00992 34 EPGGPAERGGLRVGDRILEVNGVSVE 59 (82)
T ss_pred CCCChHHhCCCCCCCEEEEECCEEcC
Confidence 44655555 48999999999999763
No 31
>TIGR01880 Ac-peptdase-euk N-acyl-L-amino-acid amidohydrolase. This model represents a family of eukaryotic N-acyl-L-amino-acid amidohydrolases active on fatty acid and acetyl amides of L-amino acids.
Probab=50.35 E-value=1.5e+02 Score=28.36 Aligned_cols=32 Identities=9% Similarity=0.006 Sum_probs=22.7
Q ss_pred cchHHHHHHHHHHHHhcC--CCeEEEEeeeeecc
Q psy6043 100 KCGAAVVAGFMKAVAMLQ--PKVRVVGALAVVRN 131 (282)
Q Consensus 100 M~GAAaV~ga~~a~a~l~--~~vnV~~il~~~EN 131 (282)
++|.|+.+.+++++.+.+ ++-+|+-++..-|=
T Consensus 114 K~~~aa~l~a~~~l~~~~~~~~~~v~l~~~~dEE 147 (400)
T TIGR01880 114 KCVGVQYLEAVRNLKASGFKFKRTIHISFVPDEE 147 (400)
T ss_pred cHHHHHHHHHHHHHHHcCCCCCceEEEEEeCCcc
Confidence 357788999999998865 44567666655553
No 32
>PRK13004 peptidase; Reviewed
Probab=49.90 E-value=1e+02 Score=29.64 Aligned_cols=27 Identities=19% Similarity=-0.004 Sum_probs=19.8
Q ss_pred cchHHHHHHHHHHHHhcCC--CeEEEEee
Q psy6043 100 KCGAAVVAGFMKAVAMLQP--KVRVVGAL 126 (282)
Q Consensus 100 M~GAAaV~ga~~a~a~l~~--~vnV~~il 126 (282)
++|.|+.+.+++++.+.+. +.+|+-+.
T Consensus 112 Kg~~aa~l~a~~~l~~~~~~~~~~i~~~~ 140 (399)
T PRK13004 112 KGGMASMVYAAKIIKDLGLDDEYTLYVTG 140 (399)
T ss_pred chHHHHHHHHHHHHHhcCCCCCCeEEEEE
Confidence 4788999999999988764 45654333
No 33
>PRK07318 dipeptidase PepV; Reviewed
Probab=49.85 E-value=1.1e+02 Score=30.20 Aligned_cols=94 Identities=16% Similarity=0.105 Sum_probs=53.4
Q ss_pred HHHHHHHHhhcCCCCeEEEEecchHHHhccCChhhHhhhccCCCCCCCceEEEEEecC---CCCCC-CCce-------Ee
Q psy6043 5 KVEEYILETFKNTPSIKINIIKDPKILDKEYPLFSAVNRAASVIDRHQGRVIFLEYEP---TSSSP-TSSL-------FL 73 (282)
Q Consensus 5 ~~a~~~~~~~~~~~~v~v~v~~~~~~~~~gm~~~laVg~gS~~~s~~~p~~v~l~Y~~---~~~~~-~~~i-------aL 73 (282)
..++++.+.+++++ +++++++. .-+. +..|. .+|+++...+-. .+..+ ..|. -|
T Consensus 47 ~~~~~l~~~~~~~G-~~~~~~~n-------~~~~--~~~~~-----~~~~l~l~gH~DvVp~~~~W~~~Pf~~~~~dg~l 111 (466)
T PRK07318 47 KALEKFLEIAERDG-FKTKNVDN-------YAGH--IEYGE-----GEEVLGILGHLDVVPAGDGWDTDPYEPVIKDGKI 111 (466)
T ss_pred HHHHHHHHHHHHCC-CEEEEecC-------ccce--EEECC-----CCCEEEEEEecCCCCCCCCCCCCCcceEEECCEE
Confidence 58899999999998 99887641 1110 11121 245666655532 11011 1222 34
Q ss_pred eccceEEccCCCCCCCCCCcccCccCcchHHHHHHHHHHHHhcCC--CeEEEEeeeeecc
Q psy6043 74 VGKGVTYDTGGADIKISGNMAGMARDKCGAAVVAGFMKAVAMLQP--KVRVVGALAVVRN 131 (282)
Q Consensus 74 VGKGiTFDsGG~slKp~~~M~~Mk~DM~GAAaV~ga~~a~a~l~~--~vnV~~il~~~EN 131 (282)
-|+|.+ | |++|.|+++.+++++.+.+. +-+|..++-.-|=
T Consensus 112 yGRG~~-D-----------------mKgg~aa~l~Al~~l~~~g~~~~~~i~l~~~~DEE 153 (466)
T PRK07318 112 YARGTS-D-----------------DKGPTMAAYYALKIIKELGLPLSKKVRFIVGTDEE 153 (466)
T ss_pred EEcccc-c-----------------CcHHHHHHHHHHHHHHHcCCCCCccEEEEEEcccc
Confidence 555542 1 24678889999999988664 3466655555544
No 34
>PRK06915 acetylornithine deacetylase; Validated
Probab=48.95 E-value=93 Score=30.03 Aligned_cols=22 Identities=9% Similarity=0.371 Sum_probs=17.9
Q ss_pred HHHHHHHHHhhcCCCCeEEEEec
Q psy6043 4 PKVEEYILETFKNTPSIKINIIK 26 (282)
Q Consensus 4 ~~~a~~~~~~~~~~~~v~v~v~~ 26 (282)
...++++++.+++++ ++++++.
T Consensus 37 ~~~~~~l~~~l~~~G-~~~~~~~ 58 (422)
T PRK06915 37 SGAQAIVIEKLRELG-LDLDIWE 58 (422)
T ss_pred HHHHHHHHHHHHhcC-CeeEEee
Confidence 467888999999998 8888764
No 35
>smart00228 PDZ Domain present in PSD-95, Dlg, and ZO-1/2. Also called DHR (Dlg homologous region) or GLGF (relatively well conserved tetrapeptide in these domains). Some PDZs have been shown to bind C-terminal polypeptides; others appear to bind internal (non-C-terminal) polypeptides. Different PDZs possess different binding specificities.
Probab=48.60 E-value=13 Score=26.92 Aligned_cols=26 Identities=19% Similarity=0.310 Sum_probs=19.3
Q ss_pred eeccCCCCCC-CCCCceEEccCCeEEE
Q psy6043 128 VVRNSCGENS-YVSDEVVVSRAGKRIR 153 (282)
Q Consensus 128 ~~EN~i~~~a-~~pgDVi~s~~GkTVE 153 (282)
.-+|.+...+ ++|||+|.+-||+.+.
T Consensus 33 v~~~s~a~~~gl~~GD~I~~In~~~v~ 59 (85)
T smart00228 33 VVPGSPAAKAGLKVGDVILEVNGTSVE 59 (85)
T ss_pred ECCCCHHHHcCCCCCCEEEEECCEECC
Confidence 3455555455 9999999999997663
No 36
>PRK07907 hypothetical protein; Provisional
Probab=48.35 E-value=82 Score=30.89 Aligned_cols=97 Identities=14% Similarity=0.208 Sum_probs=52.1
Q ss_pred HHHHHHHHhhcCCCCe-EEEEecchHHHhccCChhhHhhhccCCCCCCCceEEEEEecC---CCCC--C-CCce------
Q psy6043 5 KVEEYILETFKNTPSI-KINIIKDPKILDKEYPLFSAVNRAASVIDRHQGRVIFLEYEP---TSSS--P-TSSL------ 71 (282)
Q Consensus 5 ~~a~~~~~~~~~~~~v-~v~v~~~~~~~~~gm~~~laVg~gS~~~s~~~p~~v~l~Y~~---~~~~--~-~~~i------ 71 (282)
.+++++++.+++++ + ++++++ ..+.+.+++.-.|+. ..|.++...+-. .+.. + ..|.
T Consensus 45 ~~~~~l~~~l~~~g-~~~~~~~~-----~~~~~nl~a~~~~~~----~~~~lll~gH~DvVp~~~~~~W~~~Pf~~~~~~ 114 (449)
T PRK07907 45 RSAEWVADLLREAG-FDDVRVVS-----ADGAPAVIGTRPAPP----GAPTVLLYAHHDVQPPGDPDAWDSPPFELTERD 114 (449)
T ss_pred HHHHHHHHHHHHcC-CceEEEEe-----cCCCCEEEEEecCCC----CCCEEEEEcccCCCCCCCccccCCCCceeEEEC
Confidence 57888999999988 7 788774 123334444323321 234555444431 1100 0 1222
Q ss_pred -EeeccceEEccCCCCCCCCCCcccCccC-cchHHHHHHHHHHHHhcCCCeEEEEeeeeecc
Q psy6043 72 -FLVGKGVTYDTGGADIKISGNMAGMARD-KCGAAVVAGFMKAVAMLQPKVRVVGALAVVRN 131 (282)
Q Consensus 72 -aLVGKGiTFDsGG~slKp~~~M~~Mk~D-M~GAAaV~ga~~a~a~l~~~vnV~~il~~~EN 131 (282)
-|-|+|. .| ++|.|+.+-+++++ ..+++++|..++-.-|-
T Consensus 115 g~lyGrG~-------------------~D~Kg~~aa~l~a~~~l-~~~~~~~i~~~~~~dEE 156 (449)
T PRK07907 115 GRLYGRGA-------------------ADDKGGIAMHLAALRAL-GGDLPVGVTVFVEGEEE 156 (449)
T ss_pred CEEEECCc-------------------cCCcHHHHHHHHHHHHh-ccCCCCcEEEEEEcCcc
Confidence 2333442 33 34566777777777 55667888776655663
No 37
>PRK13009 succinyl-diaminopimelate desuccinylase; Reviewed
Probab=47.68 E-value=1.4e+02 Score=28.09 Aligned_cols=32 Identities=6% Similarity=-0.098 Sum_probs=21.7
Q ss_pred chHHHHHHHHHHHHhcC--CCeEEEEeeeeeccC
Q psy6043 101 CGAAVVAGFMKAVAMLQ--PKVRVVGALAVVRNS 132 (282)
Q Consensus 101 ~GAAaV~ga~~a~a~l~--~~vnV~~il~~~EN~ 132 (282)
+|.|+.+.+++++.+.+ ++.+|+-++...|-.
T Consensus 102 gg~aa~l~a~~~l~~~~~~~~~~i~~~~~~~EE~ 135 (375)
T PRK13009 102 GSLAAFVVAAERFVAAHPDHKGSIAFLITSDEEG 135 (375)
T ss_pred HHHHHHHHHHHHHHHhcCCCCceEEEEEEeeccc
Confidence 47777888888887654 445777666666653
No 38
>KOG1402|consensus
Probab=47.35 E-value=76 Score=31.83 Aligned_cols=90 Identities=18% Similarity=0.314 Sum_probs=67.7
Q ss_pred cHHHHHHHHHhhcCCCCeEEEEecchHHHhccCChhhHhhhccCCCCCCCceEEEEEecCCCCCCCCceEeeccceEEcc
Q psy6043 3 PPKVEEYILETFKNTPSIKINIIKDPKILDKEYPLFSAVNRAASVIDRHQGRVIFLEYEPTSSSPTSSLFLVGKGVTYDT 82 (282)
Q Consensus 3 P~~~a~~~~~~~~~~~~v~v~v~~~~~~~~~gm~~~laVg~gS~~~s~~~p~~v~l~Y~~~~~~~~~~iaLVGKGiTFDs 82 (282)
|.-+-..+++++.++. ..-|.|+-+ -|. + +.-+|+..+|.. .++-|++.||++ |
T Consensus 226 ~~GYL~~vreLCtkyn--vl~I~DEvQ---TGl------~--------RTGk~la~d~en----v~PDivilgKal---S 279 (427)
T KOG1402|consen 226 PPGYLKKVRELCTKYN--VLLIADEVQ---TGL------A--------RTGKLLACDYEN----VRPDIVILGKAL---S 279 (427)
T ss_pred CchhHHHHHHHHHhhc--EEEEehhhh---hcc------c--------ccCcEEEeehhh----cCCCeEEEeccc---c
Confidence 4455567889888887 344554433 222 2 457899999943 567899999997 7
Q ss_pred CC--------------CCCCCCCCcccCccCcchHHHHHHHHHHHHhcCC
Q psy6043 83 GG--------------ADIKISGNMAGMARDKCGAAVVAGFMKAVAMLQP 118 (282)
Q Consensus 83 GG--------------~slKp~~~M~~Mk~DM~GAAaV~ga~~a~a~l~~ 118 (282)
|| +++||+.+=...-..--|.|+-++++..|-+-++
T Consensus 280 GG~~Pvsavl~~~~im~~~~pgeHgsTyggNpLg~~vaiAalevi~eekL 329 (427)
T KOG1402|consen 280 GGVYPVSAVLADDDIMLNIKPGEHGSTYGGNPLGCAVAIAALEVIVEEKL 329 (427)
T ss_pred CCeeeeEEEEecHHHHhccCCCccccccCCChHHHHHHHHHHHHHHHHHH
Confidence 88 4799999888888889999999999998887665
No 39
>KOG1349|consensus
Probab=46.98 E-value=37 Score=32.65 Aligned_cols=52 Identities=15% Similarity=0.164 Sum_probs=43.8
Q ss_pred hHHHHHHHHHHHHhcCCC-eEEEEeeeeeccCC-CCCCCCCCceEEcc------CCeEEEec
Q psy6043 102 GAAVVAGFMKAVAMLQPK-VRVVGALAVVRNSC-GENSYVSDEVVVSR------AGKRIRVT 155 (282)
Q Consensus 102 GAAaV~ga~~a~a~l~~~-vnV~~il~~~EN~i-~~~a~~pgDVi~s~------~GkTVEI~ 155 (282)
=.|.|+++-+.+-+|+.| =+| +|-++|||+ +..-.+||-|.-.. -|+.|||.
T Consensus 45 H~aNvl~~YrsvKrlGipDsqI--ilmladd~acn~RN~~pg~Vy~n~~~~~nlygd~vevd 104 (309)
T KOG1349|consen 45 HVANVLSVYRSVKRLGIPDSQI--ILMLADDMACNSRNPRPGTVYNNENHALNLYGDDVEVD 104 (309)
T ss_pred HHHHHHHHHHHHHHcCCCcccE--EEEeccccccccCCCCCcceeccccccccccCCcceee
Confidence 368999999999999999 666 588899986 56678999998887 78888874
No 40
>PRK09290 allantoate amidohydrolase; Reviewed
Probab=46.97 E-value=1.3e+02 Score=29.02 Aligned_cols=32 Identities=3% Similarity=-0.123 Sum_probs=21.9
Q ss_pred cchHHHHHHHHHHHHhcCC--CeEEEEeeeeecc
Q psy6043 100 KCGAAVVAGFMKAVAMLQP--KVRVVGALAVVRN 131 (282)
Q Consensus 100 M~GAAaV~ga~~a~a~l~~--~vnV~~il~~~EN 131 (282)
++|.|+.+.+++++.+.+. +-+|+-+...-|=
T Consensus 94 k~g~aa~l~a~~~l~~~~~~~~~~i~~~~~~dEE 127 (413)
T PRK09290 94 PLGVLAGLEAVRTLNERGIRPRRPIEVVAFTNEE 127 (413)
T ss_pred HHHHHHHHHHHHHHHHcCCCCCCCeEEEEEcCCc
Confidence 5699999999999988764 3455544444444
No 41
>PF10447 EXOSC1: Exosome component EXOSC1/CSL4; InterPro: IPR019495 The exosome mediates degradation of unstable mRNAs that contain AU-rich elements (AREs) within their 3' untranslated regions []. The proteins in this entry are components of the exosome 3'->5' exoribonuclease complex. They do not have exonuclease activity, but are required for the 3'-processing of the 7S pre-RNA to the mature 5.8S rRNA and for mRNA decay [, ].; PDB: 2NN6_I.
Probab=46.59 E-value=9.1 Score=30.10 Aligned_cols=13 Identities=15% Similarity=0.417 Sum_probs=9.0
Q ss_pred CCCCCCCceEEcc
Q psy6043 135 ENSYVSDEVVVSR 147 (282)
Q Consensus 135 ~~a~~pgDVi~s~ 147 (282)
.++|||||||++.
T Consensus 66 ~~~FrpGDIVrA~ 78 (82)
T PF10447_consen 66 YDCFRPGDIVRAR 78 (82)
T ss_dssp GGT--SSSEEEEE
T ss_pred HhccCCCCEEEEE
Confidence 5789999999863
No 42
>PRK12893 allantoate amidohydrolase; Reviewed
Probab=46.41 E-value=95 Score=29.86 Aligned_cols=32 Identities=3% Similarity=-0.084 Sum_probs=22.9
Q ss_pred cchHHHHHHHHHHHHhcCC--CeEEEEeeeeecc
Q psy6043 100 KCGAAVVAGFMKAVAMLQP--KVRVVGALAVVRN 131 (282)
Q Consensus 100 M~GAAaV~ga~~a~a~l~~--~vnV~~il~~~EN 131 (282)
.+|-|+.+.+++++.+.+. +-+|+-+.-..|-
T Consensus 97 k~gvaa~l~a~~~l~~~~~~~~~~v~~~~~~dEE 130 (412)
T PRK12893 97 ALGVLAALEVVRTLNDAGIRTRRPIEVVSWTNEE 130 (412)
T ss_pred hhhHHHHHHHHHHHHHcCCCCCCCeEEEEEcccc
Confidence 3689999999999998663 4456555555555
No 43
>PRK12890 allantoate amidohydrolase; Reviewed
Probab=44.27 E-value=1.7e+02 Score=28.23 Aligned_cols=32 Identities=6% Similarity=-0.177 Sum_probs=21.5
Q ss_pred cchHHHHHHHHHHHHhcCC--CeEEEEeeeeecc
Q psy6043 100 KCGAAVVAGFMKAVAMLQP--KVRVVGALAVVRN 131 (282)
Q Consensus 100 M~GAAaV~ga~~a~a~l~~--~vnV~~il~~~EN 131 (282)
++|.|+.+.+++++.+.+. +-+|+-+...-|=
T Consensus 95 ~~g~aa~l~a~~~l~~~~~~~~~~i~~~~~~dEE 128 (414)
T PRK12890 95 ILGVLAGLEVVAALREAGIRPPHPLEVIAFTNEE 128 (414)
T ss_pred HHHHHHHHHHHHHHHHcCCCCCCCeEEEEEeccc
Confidence 4588888889998887654 4556545555544
No 44
>PRK08554 peptidase; Reviewed
Probab=43.67 E-value=99 Score=30.63 Aligned_cols=32 Identities=19% Similarity=0.033 Sum_probs=22.5
Q ss_pred cchHHHHHHHHHHHHhcCCCeEEEEeeeeecc
Q psy6043 100 KCGAAVVAGFMKAVAMLQPKVRVVGALAVVRN 131 (282)
Q Consensus 100 M~GAAaV~ga~~a~a~l~~~vnV~~il~~~EN 131 (282)
++|.|+.+.+++++.+.+++.+|.-++-.-|-
T Consensus 105 Kgg~aa~l~A~~~l~~~~~~~~i~l~~~~dEE 136 (438)
T PRK08554 105 KGNVASVMLALKELSKEPLNGKVIFAFTGDEE 136 (438)
T ss_pred hHHHHHHHHHHHHHHhcCCCCCEEEEEEcccc
Confidence 35677788999998876666666655655554
No 45
>PRK08201 hypothetical protein; Provisional
Probab=43.60 E-value=1.1e+02 Score=29.97 Aligned_cols=33 Identities=12% Similarity=-0.057 Sum_probs=23.1
Q ss_pred cchHHHHHHHHHHHHhc--CCCeEEEEeeeeeccC
Q psy6043 100 KCGAAVVAGFMKAVAML--QPKVRVVGALAVVRNS 132 (282)
Q Consensus 100 M~GAAaV~ga~~a~a~l--~~~vnV~~il~~~EN~ 132 (282)
++|.|+.+.+++++.+. .+|.+|.-++..-|-.
T Consensus 122 Kgglaa~l~a~~~l~~~~~~~~~~i~~~~~~dEE~ 156 (456)
T PRK08201 122 KGQVFMHLKAVEALLKVEGTLPVNVKFCIEGEEEI 156 (456)
T ss_pred cHHHHHHHHHHHHHHHhcCCCCCCEEEEEEccccc
Confidence 45788888888888663 3567777666666653
No 46
>PRK09133 hypothetical protein; Provisional
Probab=43.13 E-value=84 Score=31.06 Aligned_cols=32 Identities=22% Similarity=0.168 Sum_probs=22.3
Q ss_pred cchHHHHHHHHHHHHhcC--CCeEEEEeeeeecc
Q psy6043 100 KCGAAVVAGFMKAVAMLQ--PKVRVVGALAVVRN 131 (282)
Q Consensus 100 M~GAAaV~ga~~a~a~l~--~~vnV~~il~~~EN 131 (282)
++|.|+.+.+++++.+.+ ++.+|+-++-.-|=
T Consensus 143 Kg~~aa~l~a~~~l~~~~~~~~~~i~~~~~~dEE 176 (472)
T PRK09133 143 KADAAIWVATLIRLKREGFKPKRDIILALTGDEE 176 (472)
T ss_pred hHHHHHHHHHHHHHHhcCCCCCCCEEEEEECccc
Confidence 357888888998888764 45677766666654
No 47
>PF11330 DUF3132: Protein of unknown function (DUF3132); InterPro: IPR021479 This entry is represented by the Citrus psorosis virus, 54kDa protein; it is a family of uncharacterised viral proteins.
Probab=42.38 E-value=30 Score=28.35 Aligned_cols=43 Identities=16% Similarity=0.284 Sum_probs=38.4
Q ss_pred eccCCCCCCCCCCceEEccCCeEEEecCCCcccceehhhhhHH
Q psy6043 129 VRNSCGENSYVSDEVVVSRAGKRIRVTNTDAEGRFAMADVLAH 171 (282)
Q Consensus 129 ~EN~i~~~a~~pgDVi~s~~GkTVEI~NTDAEGRLvLADaL~y 171 (282)
-|.-|+|.-.--+||+--.+|.-|-|.+.-.|||+++-|-++-
T Consensus 67 eeghidgmrtagddvllekdgevvmildsrdegrmwikddvwa 109 (124)
T PF11330_consen 67 EEGHIDGMRTAGDDVLLEKDGEVVMILDSRDEGRMWIKDDVWA 109 (124)
T ss_pred hccccccccccCCeEEEecCCcEEEEEeccccCceeeechhHH
Confidence 3667888888889999999999999999999999999988763
No 48
>PRK05469 peptidase T; Provisional
Probab=36.15 E-value=2.4e+02 Score=27.11 Aligned_cols=33 Identities=15% Similarity=0.098 Sum_probs=23.2
Q ss_pred CcchHHHHHHHHHHHHhcC--CCeEEEEeeeeecc
Q psy6043 99 DKCGAAVVAGFMKAVAMLQ--PKVRVVGALAVVRN 131 (282)
Q Consensus 99 DM~GAAaV~ga~~a~a~l~--~~vnV~~il~~~EN 131 (282)
|++|.|+.+.+++++.+.+ ++.+|+.++-..|-
T Consensus 141 ~Kgglaa~l~a~~~l~~~~~~~~g~v~~~f~~dEE 175 (408)
T PRK05469 141 DKAGIAEIMTALEYLIAHPEIKHGDIRVAFTPDEE 175 (408)
T ss_pred chHHHHHHHHHHHHHHhCCCCCCCCEEEEEecccc
Confidence 3466788888999887764 34677767766665
No 49
>PRK08588 succinyl-diaminopimelate desuccinylase; Reviewed
Probab=34.89 E-value=1.8e+02 Score=27.44 Aligned_cols=34 Identities=12% Similarity=-0.072 Sum_probs=23.7
Q ss_pred Cc-chHHHHHHHHHHHHhcC--CCeEEEEeeeeeccC
Q psy6043 99 DK-CGAAVVAGFMKAVAMLQ--PKVRVVGALAVVRNS 132 (282)
Q Consensus 99 DM-~GAAaV~ga~~a~a~l~--~~vnV~~il~~~EN~ 132 (282)
|| +|.|+.+-++.++.+.+ ++.+|.-++-..|-.
T Consensus 100 D~Kgg~aa~l~a~~~l~~~~~~~~~~i~l~~~~dEE~ 136 (377)
T PRK08588 100 DMKSGLAALVIAMIELKEQGQLLNGTIRLLATAGEEV 136 (377)
T ss_pred cccchHHHHHHHHHHHHHcCCCCCCcEEEEEEccccc
Confidence 44 57888888888888875 346776666666653
No 50
>PRK09374 rplB 50S ribosomal protein L2; Validated
Probab=34.82 E-value=80 Score=30.25 Aligned_cols=25 Identities=28% Similarity=0.638 Sum_probs=18.7
Q ss_pred CceEEEEEecCCCCCCCCceEeeccceEEccC
Q psy6043 52 QGRVIFLEYEPTSSSPTSSLFLVGKGVTYDTG 83 (282)
Q Consensus 52 ~p~~v~l~Y~~~~~~~~~~iaLVGKGiTFDsG 83 (282)
+..++.++|.|.. ..+|||| -|+.|
T Consensus 75 ~~~V~~IeyDP~R---sa~IAlv----~~~~g 99 (276)
T PRK09374 75 PAKVERIEYDPNR---SARIALL----HYADG 99 (276)
T ss_pred CEEEEEEEeCCCC---CcCEEEE----EecCC
Confidence 5778999999986 3688887 35554
No 51
>TIGR01887 dipeptidaselike dipeptidase, putative. This model represents a clade of probable zinc dipeptidases, closely related to the characterized non-specific dipeptidase, PepV. Many enzymes in this clade have been given names including the terms "Xaa-His" and "carnosinase" due to the early mis-characterization of the Lactobacillus delbrueckii PepV enzyme. These names are likely too specific.
Probab=33.69 E-value=2.3e+02 Score=28.20 Aligned_cols=22 Identities=18% Similarity=0.147 Sum_probs=17.7
Q ss_pred HHHHHHHHHhhcCCCCeEEEEec
Q psy6043 4 PKVEEYILETFKNTPSIKINIIK 26 (282)
Q Consensus 4 ~~~a~~~~~~~~~~~~v~v~v~~ 26 (282)
...++++++.+++.+ ++++.+.
T Consensus 34 ~~~~~~l~~~~~~~g-~~~~~~~ 55 (447)
T TIGR01887 34 KKALDKFLELAKRDG-FTTENVD 55 (447)
T ss_pred HHHHHHHHHHHHHcC-ceEEEec
Confidence 368889999999998 8888653
No 52
>PRK13381 peptidase T; Provisional
Probab=32.80 E-value=2e+02 Score=27.62 Aligned_cols=32 Identities=19% Similarity=0.159 Sum_probs=19.4
Q ss_pred cchHHHHHHHHHHHHhcCC-CeEEEEeeeeecc
Q psy6043 100 KCGAAVVAGFMKAVAMLQP-KVRVVGALAVVRN 131 (282)
Q Consensus 100 M~GAAaV~ga~~a~a~l~~-~vnV~~il~~~EN 131 (282)
++|.|+.+.+++++.+.+. +-+|+-+.-.-|-
T Consensus 140 Kgg~aa~l~a~~~l~~~~~~~g~i~~~~~~dEE 172 (404)
T PRK13381 140 KAAIAVVMTLLENLTENEVEHGDIVVAFVPDEE 172 (404)
T ss_pred HHHHHHHHHHHHHHHhcCCCCCCEEEEEEcccc
Confidence 3567888899998877543 2345444444443
No 53
>PLN02280 IAA-amino acid hydrolase
Probab=30.86 E-value=2.7e+02 Score=28.16 Aligned_cols=102 Identities=14% Similarity=0.011 Sum_probs=53.9
Q ss_pred HHHHHHHHHhhcCCCCeEEEEecchHHHhccCChhhHhhhccCCCCCCCceEEEEEecCCCCCCCCceEeec--cceEEc
Q psy6043 4 PKVEEYILETFKNTPSIKINIIKDPKILDKEYPLFSAVNRAASVIDRHQGRVIFLEYEPTSSSPTSSLFLVG--KGVTYD 81 (282)
Q Consensus 4 ~~~a~~~~~~~~~~~~v~v~v~~~~~~~~~gm~~~laVg~gS~~~s~~~p~~v~l~Y~~~~~~~~~~iaLVG--KGiTFD 81 (282)
...++++.+.+++++ +++++.. +-.++.++- |.. .+|.++..-.-..= | ++ .+..||
T Consensus 117 ~~t~~~i~~~L~~~G-~~~~~~~-------~~~~vva~~-g~~----~~~~I~l~gh~DaV-----P---~~e~~~w~~~ 175 (478)
T PLN02280 117 YKTSELVRSELDRMG-IMYRYPL-------AKTGIRAWI-GTG----GPPFVAVRADMDAL-----P---IQEAVEWEHK 175 (478)
T ss_pred HHHHHHHHHHHHHCC-CeEEecC-------CCCEEEEEE-CCC----CCCEEEEEEecCCC-----c---ccCCCCCCCC
Confidence 456788889999988 8877632 112333332 321 13433322111100 0 11 123445
Q ss_pred cCCCCCCCCCCcccCccCcchHHHHHHHHHHHHhcC--CCeEEEEeeeeeccC
Q psy6043 82 TGGADIKISGNMAGMARDKCGAAVVAGFMKAVAMLQ--PKVRVVGALAVVRNS 132 (282)
Q Consensus 82 sGG~slKp~~~M~~Mk~DM~GAAaV~ga~~a~a~l~--~~vnV~~il~~~EN~ 132 (282)
+ ++ ..-|+.-=.|| +.|++++++.++.+.+ ++-+|+-+....|-.
T Consensus 176 p----~~-~G~~h~cGhd~-~~A~~l~a~~~L~~~~~~~~g~V~~if~pdEE~ 222 (478)
T PLN02280 176 S----KV-AGKMHACGHDA-HVAMLLGAAKILKSREHLLKGTVVLLFQPAEEA 222 (478)
T ss_pred C----CC-CCeEEeCCCcH-HHHHHHHHHHHHHhccccCCceEEEEecccccc
Confidence 4 22 22344222355 8999999999998765 456777666666553
No 54
>PRK12892 allantoate amidohydrolase; Reviewed
Probab=30.46 E-value=2.2e+02 Score=27.34 Aligned_cols=31 Identities=6% Similarity=-0.140 Sum_probs=20.2
Q ss_pred cchHHHHHHHHHHHHhcC--CCeEEEEeeeeec
Q psy6043 100 KCGAAVVAGFMKAVAMLQ--PKVRVVGALAVVR 130 (282)
Q Consensus 100 M~GAAaV~ga~~a~a~l~--~~vnV~~il~~~E 130 (282)
.+|.|+.+-+++++.+.+ ++-+|+-+.-.-|
T Consensus 95 ~~Gvaa~l~a~~~l~~~~~~~~~~i~~~~~~dE 127 (412)
T PRK12892 95 ALGVVAGLEAARALNEHGIATRHPLDVVAWCDE 127 (412)
T ss_pred hHHHHHHHHHHHHHHHcCCCCCCCeEEEEecCc
Confidence 468899999999988765 3445543443333
No 55
>PRK07079 hypothetical protein; Provisional
Probab=30.03 E-value=2.2e+02 Score=28.09 Aligned_cols=31 Identities=10% Similarity=-0.052 Sum_probs=19.7
Q ss_pred cchHHHHHHHHHHHHh---cCCCeEEEEeeeeec
Q psy6043 100 KCGAAVVAGFMKAVAM---LQPKVRVVGALAVVR 130 (282)
Q Consensus 100 M~GAAaV~ga~~a~a~---l~~~vnV~~il~~~E 130 (282)
++|.|+.+-+++++.+ .+++.+|+-++-.-|
T Consensus 129 Kgg~aa~l~A~~~l~~~~~~~~~~~i~~~~~~dE 162 (469)
T PRK07079 129 KGQHTINLAALEQVLAARGGRLGFNVKLLIEMGE 162 (469)
T ss_pred cHHHHHHHHHHHHHHHhcCCCCCCCEEEEEECcc
Confidence 3566788888888753 345677765554443
No 56
>PF09926 DUF2158: Uncharacterized small protein (DUF2158); InterPro: IPR019226 This entry represents a family of predominantly prokaryotic proteins with no known function.
Probab=29.96 E-value=32 Score=24.99 Aligned_cols=28 Identities=21% Similarity=0.373 Sum_probs=18.5
Q ss_pred CCCCceEEccCC---eEEE-ecCC-Ccccceeh
Q psy6043 138 YVSDEVVVSRAG---KRIR-VTNT-DAEGRFAM 165 (282)
Q Consensus 138 ~~pgDVi~s~~G---kTVE-I~NT-DAEGRLvL 165 (282)
|++||||+-.|| .||+ |.+. ++.++-+.
T Consensus 1 f~~GDvV~LKSGGp~MTV~~v~~~~~~~~~~v~ 33 (53)
T PF09926_consen 1 FKIGDVVQLKSGGPRMTVTEVGPNAGASGGWVE 33 (53)
T ss_pred CCCCCEEEEccCCCCeEEEEccccccCCCCeEE
Confidence 689999999998 4665 4444 34444443
No 57
>PRK09612 rpl2p 50S ribosomal protein L2P; Validated
Probab=29.27 E-value=1.1e+02 Score=28.82 Aligned_cols=26 Identities=19% Similarity=0.456 Sum_probs=19.9
Q ss_pred CCceEEEEEecCCCCCCCCceEeeccceEEccC
Q psy6043 51 HQGRVIFLEYEPTSSSPTSSLFLVGKGVTYDTG 83 (282)
Q Consensus 51 ~~p~~v~l~Y~~~~~~~~~~iaLVGKGiTFDsG 83 (282)
.+..++.|+|.|+. ..+|+|| .|+.|
T Consensus 39 ~~g~V~~IeyDPnR---sa~IAlv----~~~~g 64 (238)
T PRK09612 39 LRGKVVDILHDPGR---NAPVAKV----KFENG 64 (238)
T ss_pred eeEEEEEEEECCCC---CCeEEEE----EeCCC
Confidence 35789999999987 3689987 36665
No 58
>PF13973 DUF4222: Domain of unknown function (DUF4222)
Probab=28.64 E-value=48 Score=23.96 Aligned_cols=26 Identities=12% Similarity=0.286 Sum_probs=22.8
Q ss_pred CCCCceEEccCCeEEEecCCCccccee
Q psy6043 138 YVSDEVVVSRAGKRIRVTNTDAEGRFA 164 (282)
Q Consensus 138 ~~pgDVi~s~~GkTVEI~NTDAEGRLv 164 (282)
.+|||+.+=..|-+|+|.-.|.+ |.+
T Consensus 3 i~~g~~y~D~~G~~V~I~~~~~~-rV~ 28 (53)
T PF13973_consen 3 IQPGDIYRDKRGYPVTIISVDFN-RVT 28 (53)
T ss_pred cCCCCEEECCCCCEEEEEEEECC-EEE
Confidence 47999999999999999999988 543
No 59
>PLN02693 IAA-amino acid hydrolase
Probab=28.24 E-value=3.6e+02 Score=26.74 Aligned_cols=32 Identities=16% Similarity=0.062 Sum_probs=23.3
Q ss_pred cchHHHHHHHHHHHHhcC--CCeEEEEeeeeecc
Q psy6043 100 KCGAAVVAGFMKAVAMLQ--PKVRVVGALAVVRN 131 (282)
Q Consensus 100 M~GAAaV~ga~~a~a~l~--~~vnV~~il~~~EN 131 (282)
.++.|+.+++++++.+.+ ++-+|+-+....|=
T Consensus 138 kg~~A~~l~Aa~~L~~~~~~~~g~V~~if~pdEE 171 (437)
T PLN02693 138 DGHVAMLLGAAKILQEHRHHLQGTVVLIFQPAEE 171 (437)
T ss_pred hHHHHHHHHHHHHHHhCcccCCceEEEEEEEccc
Confidence 457889999999998875 44567666666664
No 60
>PF14685 Tricorn_PDZ: Tricorn protease PDZ domain; PDB: 1N6F_D 1N6D_C 1N6E_C 1K32_A.
Probab=27.90 E-value=36 Score=26.99 Aligned_cols=18 Identities=6% Similarity=0.196 Sum_probs=11.2
Q ss_pred CCCCCCceEEccCCeEEE
Q psy6043 136 NSYVSDEVVVSRAGKRIR 153 (282)
Q Consensus 136 ~a~~pgDVi~s~~GkTVE 153 (282)
-..++||+|++-||+.|.
T Consensus 38 v~v~~GD~I~aInG~~v~ 55 (88)
T PF14685_consen 38 VDVREGDYILAINGQPVT 55 (88)
T ss_dssp ----TT-EEEEETTEE-B
T ss_pred CCCCCCCEEEEECCEECC
Confidence 346899999999999883
No 61
>TIGR02038 protease_degS periplasmic serine pepetdase DegS. This family consists of the periplasmic serine protease DegS (HhoB), a shorter paralog of protease DO (HtrA, DegP) and DegQ (HhoA). It is found in E. coli and several other Proteobacteria of the gamma subdivision. It contains a trypsin domain and a single copy of PDZ domain (in contrast to DegP with two copies). A critical role of this DegS is to sense stress in the periplasm and partially degrade an inhibitor of sigma(E).
Probab=27.62 E-value=33 Score=33.12 Aligned_cols=28 Identities=18% Similarity=0.241 Sum_probs=21.2
Q ss_pred eeeeccCCCCC-CCCCCceEEccCCeEEE
Q psy6043 126 LAVVRNSCGEN-SYVSDEVVVSRAGKRIR 153 (282)
Q Consensus 126 l~~~EN~i~~~-a~~pgDVi~s~~GkTVE 153 (282)
.-+.+|.|... -+++||||++.||+.|.
T Consensus 283 ~~V~~~spA~~aGL~~GDvI~~Ing~~V~ 311 (351)
T TIGR02038 283 TGVDPNGPAARAGILVRDVILKYDGKDVI 311 (351)
T ss_pred eecCCCChHHHCCCCCCCEEEEECCEEcC
Confidence 34456766554 49999999999999873
No 62
>PF13275 S4_2: S4 domain; PDB: 1P9K_A.
Probab=27.34 E-value=51 Score=24.90 Aligned_cols=20 Identities=25% Similarity=0.330 Sum_probs=13.6
Q ss_pred CCCCCCCceEEccCCeEEEec
Q psy6043 135 ENSYVSDEVVVSRAGKRIRVT 155 (282)
Q Consensus 135 ~~a~~pgDVi~s~~GkTVEI~ 155 (282)
+.-.+|||+|+- +|.+++|.
T Consensus 46 g~Kl~~GD~V~~-~~~~~~Vv 65 (65)
T PF13275_consen 46 GKKLRPGDVVEI-DGEEYRVV 65 (65)
T ss_dssp S----SSEEEEE-TTEEEEEE
T ss_pred CCcCCCCCEEEE-CCEEEEEC
Confidence 456899999998 99988873
No 63
>KOG3857|consensus
Probab=27.16 E-value=36 Score=34.20 Aligned_cols=39 Identities=10% Similarity=0.279 Sum_probs=32.4
Q ss_pred HHHHHHhhcCCCCeEEEEecchH--------------HHhccCChhhHhhhccC
Q psy6043 7 EEYILETFKNTPSIKINIIKDPK--------------ILDKEYPLFSAVNRAAS 46 (282)
Q Consensus 7 a~~~~~~~~~~~~v~v~v~~~~~--------------~~~~gm~~~laVg~gS~ 46 (282)
.+.+++.+++.+ ++++|+|+.+ .+++.+..|++||.||.
T Consensus 87 ~~~a~~~L~~~~-I~~~vyD~v~~ePtv~s~~~alefak~~~fDs~vaiGGGSa 139 (465)
T KOG3857|consen 87 VKVAQDSLEENG-INVEVYDKVQPEPTVGSVTAALEFAKKKNFDSFVAIGGGSA 139 (465)
T ss_pred HHHHHHHHHHcC-CceEEecCccCCCchhhHHHHHHHHHhcccceEEEEcCcch
Confidence 467788888888 9999999753 34678999999999986
No 64
>PTZ00031 ribosomal protein L2; Provisional
Probab=26.22 E-value=1.3e+02 Score=29.47 Aligned_cols=20 Identities=25% Similarity=0.600 Sum_probs=15.5
Q ss_pred CceEEEEEecCCCCCCCCceEee
Q psy6043 52 QGRVIFLEYEPTSSSPTSSLFLV 74 (282)
Q Consensus 52 ~p~~v~l~Y~~~~~~~~~~iaLV 74 (282)
+..++.|+|.|.. ..+||||
T Consensus 106 ~g~V~~IeyDPnR---sA~IALV 125 (317)
T PTZ00031 106 YSTVLRIEYDPSR---SAHIALL 125 (317)
T ss_pred CEEEEEEEeCCCC---CCcEEEE
Confidence 5678888888876 3588887
No 65
>cd05707 S1_Rrp5_repeat_sc11 S1_Rrp5_repeat_sc11: Rrp5 is a trans-acting factor important for biogenesis of both the 40S and 60S eukaryotic ribosomal subunits. Rrp5 has two distinct regions, an N-terminal region containing tandemly repeated S1 RNA-binding domains (12 S1 repeats in Saccharomyces cerevisiae Rrp5 and 14 S1 repeats in Homo sapiens Rrp5) and a C-terminal region containing tetratricopeptide repeat (TPR) motifs thought to be involved in protein-protein interactions. Mutational studies have shown that each region represents a specific functional domain. Deletions within the S1-containing region inhibit pre-rRNA processing at either site A3 or A2, whereas deletions within the TPR region confer an inability to support cleavage of A0-A2. This CD includes S. cerevisiae S1 repeat 11 (sc11). Rrp5 is found in eukaryotes but not in prokaryotes or archaea.
Probab=26.18 E-value=54 Score=23.42 Aligned_cols=39 Identities=21% Similarity=0.287 Sum_probs=25.0
Q ss_pred EEEEeeeeeccCCC-----CCCCCCCceEEccCCeEEEecCCCc-ccceeh
Q psy6043 121 RVVGALAVVRNSCG-----ENSYVSDEVVVSRAGKRIRVTNTDA-EGRFAM 165 (282)
Q Consensus 121 nV~~il~~~EN~i~-----~~a~~pgDVi~s~~GkTVEI~NTDA-EGRLvL 165 (282)
++.|.++..|-.-. ++.|++||.|+ +.|.+.|. +||+.|
T Consensus 23 ~~~G~v~~s~l~~~~~~~~~~~~~~Gd~v~------~~v~~~d~~~~~i~l 67 (68)
T cd05707 23 GVDARVRVSELSDSYLKDWKKRFKVGQLVK------GKIVSIDPDNGRIEM 67 (68)
T ss_pred CCEEEEEHHHCCchhhcCHhhccCCCCEEE------EEEEEEeCCCCEEec
Confidence 36677777654322 44578888875 46778887 566655
No 66
>KOG2367|consensus
Probab=26.16 E-value=51 Score=34.23 Aligned_cols=39 Identities=21% Similarity=0.366 Sum_probs=30.9
Q ss_pred hHhhhccCCCCCCCceEEEEEecCCCCCCCCceEeeccceEEccCCCCCC
Q psy6043 39 SAVNRAASVIDRHQGRVIFLEYEPTSSSPTSSLFLVGKGVTYDTGGADIK 88 (282)
Q Consensus 39 laVg~gS~~~s~~~p~~v~l~Y~~~~~~~~~~iaLVGKGiTFDsGG~slK 88 (282)
.|+|.||. ......|.|+|..+. . =|=||+||.|+.++|
T Consensus 507 ha~gsg~~---~~aas~v~i~~~~~~--~------wgvg~~~d~~~a~~~ 545 (560)
T KOG2367|consen 507 HALGSGSD---TQAASYVLISYYNNT--N------WGVGVSEDVTDAGMK 545 (560)
T ss_pred hhhccCcc---cceeeEEEEEeeccc--c------cceeeecccCCchHH
Confidence 56788885 478999999995443 1 688999999998766
No 67
>CHL00052 rpl2 ribosomal protein L2
Probab=25.56 E-value=1.3e+02 Score=28.74 Aligned_cols=26 Identities=31% Similarity=0.759 Sum_probs=19.6
Q ss_pred CCceEEEEEecCCCCCCCCceEeeccceEEccC
Q psy6043 51 HQGRVIFLEYEPTSSSPTSSLFLVGKGVTYDTG 83 (282)
Q Consensus 51 ~~p~~v~l~Y~~~~~~~~~~iaLVGKGiTFDsG 83 (282)
.+..++.++|.|.. ..+|||| .|+.|
T Consensus 72 i~~~V~~IeyDP~R---sa~IAlv----~~~~g 97 (273)
T CHL00052 72 IYGRIVTIEYDPNR---NAYICLI----HYGDG 97 (273)
T ss_pred CcEEEEEEEECCCC---CccEEEE----EeCCC
Confidence 36789999999976 4689987 35555
No 68
>cd05687 S1_RPS1_repeat_ec1_hs1 S1_RPS1_repeat_ec1_hs1: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists of 4-6 tandem S1 domains. In some bacteria, the tandem S1 array is located C-terminal to a 4-hydroxy-3-methylbut-2-enyl diphosphate reductase (HMBPP reductase) domain. While RPS1 is found primarily in bacteria, proteins with tandem RPS1-like domains have been identified in plants and humans, however these lack the N-terminal HMBPP reductase domain. This CD includes S1 repeat 1 of the Escherichia coli and Homo sapiens RPS1 (ec1 and hs1, respectively). Autoantibodies to double-stranded DNA from patients with systemic lupus erythematosus cross-react with the human RPS1 homolog.
Probab=25.55 E-value=44 Score=23.90 Aligned_cols=37 Identities=19% Similarity=0.235 Sum_probs=23.4
Q ss_pred EEeeeeeccCCC-----CCCCCCCceEEccCCeEEEecCCC-cccceeh
Q psy6043 123 VGALAVVRNSCG-----ENSYVSDEVVVSRAGKRIRVTNTD-AEGRFAM 165 (282)
Q Consensus 123 ~~il~~~EN~i~-----~~a~~pgDVi~s~~GkTVEI~NTD-AEGRLvL 165 (282)
.|++|..|-... ...+++||+++.. |.+.| ..|++.|
T Consensus 25 ~g~l~~~e~~~~~~~~~~~~~~~Gd~i~~~------i~~~~~~~~~i~l 67 (70)
T cd05687 25 EGIIPISEFSDDPIENGEDEVKVGDEVEVY------VLRVEDEEGNVVL 67 (70)
T ss_pred eEEEEHHHhCccccCCHhHcCCCCCEEEEE------EEEEECCCCeEEE
Confidence 677887776543 3568999998754 45544 3455544
No 69
>TIGR01171 rplB_bact ribosomal protein L2, bacterial/organellar. This model distinguishes bacterial and organellar ribosomal protein L2 from its counterparts in the archaea nad in the eukaryotic cytosol. Plant mitochondrial examples tend to have long, variable inserts.
Probab=25.04 E-value=1.4e+02 Score=28.47 Aligned_cols=26 Identities=27% Similarity=0.639 Sum_probs=19.1
Q ss_pred CceEEEEEecCCCCCCCCceEeeccceEEccCC
Q psy6043 52 QGRVIFLEYEPTSSSPTSSLFLVGKGVTYDTGG 84 (282)
Q Consensus 52 ~p~~v~l~Y~~~~~~~~~~iaLVGKGiTFDsGG 84 (282)
+..++.++|.|.. ..+|+|| .|+.|-
T Consensus 73 ~g~V~~IeyDP~R---sa~IAlv----~~~~g~ 98 (273)
T TIGR01171 73 PAKVAAIEYDPNR---SARIALL----HYADGE 98 (273)
T ss_pred cEEEEEEEeCCCC---CcCEEEE----EecCCc
Confidence 5678999999986 3688887 355553
No 70
>PRK10942 serine endoprotease; Provisional
Probab=24.85 E-value=44 Score=33.80 Aligned_cols=25 Identities=28% Similarity=0.399 Sum_probs=19.5
Q ss_pred eccCCCCCC-CCCCceEEccCCeEEE
Q psy6043 129 VRNSCGENS-YVSDEVVVSRAGKRIR 153 (282)
Q Consensus 129 ~EN~i~~~a-~~pgDVi~s~~GkTVE 153 (282)
.+|.|...+ +++||||++.||+.|+
T Consensus 319 ~~~SpA~~AGL~~GDvIl~InG~~V~ 344 (473)
T PRK10942 319 LPNSSAAKAGIKAGDVITSLNGKPIS 344 (473)
T ss_pred CCCChHHHcCCCCCCEEEEECCEECC
Confidence 455555543 8999999999999884
No 71
>PRK08262 hypothetical protein; Provisional
Probab=24.81 E-value=5.8e+02 Score=25.27 Aligned_cols=34 Identities=15% Similarity=0.103 Sum_probs=26.7
Q ss_pred CcchHHHHHHHHHHHHhcC--CCeEEEEeeeeeccC
Q psy6043 99 DKCGAAVVAGFMKAVAMLQ--PKVRVVGALAVVRNS 132 (282)
Q Consensus 99 DM~GAAaV~ga~~a~a~l~--~~vnV~~il~~~EN~ 132 (282)
|++|.|+.+.+++.+.+.+ ++.+|+-++-.-|-.
T Consensus 155 ~Kg~~aa~L~A~~~l~~~~~~l~~~I~llf~~dEE~ 190 (486)
T PRK08262 155 DKGSLVAILEAAEALLAQGFQPRRTIYLAFGHDEEV 190 (486)
T ss_pred cchhHHHHHHHHHHHHHcCCCCCCeEEEEEeccccc
Confidence 4678889999999998875 567888777777774
No 72
>TIGR01713 typeII_sec_gspC general secretion pathway protein C. This model represents GspC, protein C of the main terminal branch of the general secretion pathway, also called type II secretion. This system transports folded proteins across the bacterial outer membrane and is widely distributed in Gram-negative pathogens.
Probab=24.47 E-value=43 Score=31.31 Aligned_cols=16 Identities=19% Similarity=0.391 Sum_probs=14.9
Q ss_pred CCCCceEEccCCeEEE
Q psy6043 138 YVSDEVVVSRAGKRIR 153 (282)
Q Consensus 138 ~~pgDVi~s~~GkTVE 153 (282)
+|+||||++.||+.|.
T Consensus 209 Lr~GDvIv~ING~~i~ 224 (259)
T TIGR01713 209 LQDGDIAVALNGLDLR 224 (259)
T ss_pred CCCCCEEEEECCEEcC
Confidence 8999999999999983
No 73
>PRK10139 serine endoprotease; Provisional
Probab=24.12 E-value=46 Score=33.56 Aligned_cols=25 Identities=20% Similarity=0.351 Sum_probs=19.4
Q ss_pred eccCCCCCC-CCCCceEEccCCeEEE
Q psy6043 129 VRNSCGENS-YVSDEVVVSRAGKRIR 153 (282)
Q Consensus 129 ~EN~i~~~a-~~pgDVi~s~~GkTVE 153 (282)
.+|.|...+ +++||||++.||+.|+
T Consensus 298 ~~~SpA~~AGL~~GDvIl~InG~~V~ 323 (455)
T PRK10139 298 LPNSGSAKAGVKAGDIITSLNGKPLN 323 (455)
T ss_pred CCCChHHHCCCCCCCEEEEECCEECC
Confidence 456655433 8999999999999874
No 74
>TIGR00225 prc C-terminal peptidase (prc). A C-terminal peptidase with different substrates in different species including processing of D1 protein of the photosystem II reaction center in higher plants and cleavage of a peptide of 11 residues from the precursor form of penicillin-binding protein in E.coli E.coli and H influenza have the most distal branch of the tree and their proteins have an N-terminal 200 amino acids that show no homology to other proteins in the database.
Probab=23.84 E-value=49 Score=31.50 Aligned_cols=26 Identities=15% Similarity=0.245 Sum_probs=20.4
Q ss_pred eeccCCCCCC-CCCCceEEccCCeEEE
Q psy6043 128 VVRNSCGENS-YVSDEVVVSRAGKRIR 153 (282)
Q Consensus 128 ~~EN~i~~~a-~~pgDVi~s~~GkTVE 153 (282)
..+|.|...+ +++||+|++.||+.|.
T Consensus 69 V~~~spA~~aGL~~GD~I~~Ing~~v~ 95 (334)
T TIGR00225 69 PFEGSPAEKAGIKPGDKIIKINGKSVA 95 (334)
T ss_pred eCCCChHHHcCCCCCCEEEEECCEECC
Confidence 3466666553 8999999999999884
No 75
>PF00595 PDZ: PDZ domain (Also known as DHR or GLGF) Coordinates are not yet available; InterPro: IPR001478 PDZ domains are found in diverse signalling proteins in bacteria, yeasts, plants, insects and vertebrates [, ]. PDZ domains can occur in one or multiple copies and are nearly always found in cytoplasmic proteins. They bind either the carboxyl-terminal sequences of proteins or internal peptide sequences []. In most cases, interaction between a PDZ domain and its target is constitutive, with a binding affinity of 1 to 10 microns. However, agonist-dependent activation of cell surface receptors is sometimes required to promote interaction with a PDZ protein. PDZ domain proteins are frequently associated with the plasma membrane, a compartment where high concentrations of phosphatidylinositol 4,5-bisphosphate (PIP2) are found. Direct interaction between PIP2 and a subset of class II PDZ domains (syntenin, CASK, Tiam-1) has been demonstrated. PDZ domains consist of 80 to 90 amino acids comprising six beta-strands (beta-A to beta-F) and two alpha-helices, A and B, compactly arranged in a globular structure. Peptide binding of the ligand takes place in an elongated surface groove as an anti-parallel beta-strand interacts with the beta-B strand and the B helix. The structure of PDZ domains allows binding to a free carboxylate group at the end of a peptide through a carboxylate-binding loop between the beta-A and beta-B strands.; GO: 0005515 protein binding; PDB: 3AXA_A 1WF8_A 1QAV_B 1QAU_A 1B8Q_A 1MC7_A 2KAW_A 1I16_A 1VB7_A 1WI4_A ....
Probab=23.56 E-value=22 Score=26.23 Aligned_cols=24 Identities=17% Similarity=0.284 Sum_probs=17.7
Q ss_pred ccCCCCCC-CCCCceEEccCCeEEE
Q psy6043 130 RNSCGENS-YVSDEVVVSRAGKRIR 153 (282)
Q Consensus 130 EN~i~~~a-~~pgDVi~s~~GkTVE 153 (282)
++.+...+ .++||.|.+-||+.|+
T Consensus 34 ~~~~a~~~gl~~GD~Il~INg~~v~ 58 (81)
T PF00595_consen 34 PGSPAERAGLKVGDRILEINGQSVR 58 (81)
T ss_dssp TTSHHHHHTSSTTEEEEEETTEEST
T ss_pred CCChHHhcccchhhhhheeCCEeCC
Confidence 34443344 9999999999998773
No 76
>PRK10898 serine endoprotease; Provisional
Probab=23.32 E-value=53 Score=31.82 Aligned_cols=26 Identities=12% Similarity=0.193 Sum_probs=20.7
Q ss_pred eeeccCCCCCC-CCCCceEEccCCeEE
Q psy6043 127 AVVRNSCGENS-YVSDEVVVSRAGKRI 152 (282)
Q Consensus 127 ~~~EN~i~~~a-~~pgDVi~s~~GkTV 152 (282)
-+.+|.|..++ +++||||++.||+.|
T Consensus 285 ~V~~~spA~~aGL~~GDvI~~Ing~~V 311 (353)
T PRK10898 285 EVSPDGPAAKAGIQVNDLIISVNNKPA 311 (353)
T ss_pred EECCCChHHHcCCCCCCEEEEECCEEc
Confidence 44566666664 999999999999987
No 77
>PRK09681 putative type II secretion protein GspC; Provisional
Probab=23.22 E-value=44 Score=31.94 Aligned_cols=33 Identities=6% Similarity=0.230 Sum_probs=23.8
Q ss_pred eEEEEeeeeeccC-------CCCCC-------CCCCceEEccCCeEE
Q psy6043 120 VRVVGALAVVRNS-------CGENS-------YVSDEVVVSRAGKRI 152 (282)
Q Consensus 120 vnV~~il~~~EN~-------i~~~a-------~~pgDVi~s~~GkTV 152 (282)
.+.+.+-|..||= |+.++ ++||||+++.||.++
T Consensus 193 ~d~i~lsPv~~~Gl~GYrl~Pgkd~~lF~~~GLq~GDva~sING~dL 239 (276)
T PRK09681 193 FNYIQLTPVRKEGIVGYAVKPGADRSLFDASGFKEGDIAIALNQQDF 239 (276)
T ss_pred hhhEEEEEEeeCCceEEEECCCCcHHHHHHcCCCCCCEEEEeCCeeC
Confidence 5566667766652 33333 799999999999987
No 78
>PRK10779 zinc metallopeptidase RseP; Provisional
Probab=22.65 E-value=45 Score=33.27 Aligned_cols=24 Identities=13% Similarity=0.106 Sum_probs=18.1
Q ss_pred eccCCCCCC-CCCCceEEccCCeEE
Q psy6043 129 VRNSCGENS-YVSDEVVVSRAGKRI 152 (282)
Q Consensus 129 ~EN~i~~~a-~~pgDVi~s~~GkTV 152 (282)
.+|.|-..| .||||||++.||+.|
T Consensus 134 ~~~SpA~kAGLk~GDvI~~vnG~~V 158 (449)
T PRK10779 134 APNSIAAQAQIAPGTELKAVDGIET 158 (449)
T ss_pred CCCCHHHHcCCCCCCEEEEECCEEc
Confidence 345444443 799999999999976
No 79
>PRK07473 carboxypeptidase; Provisional
Probab=22.42 E-value=5.8e+02 Score=24.45 Aligned_cols=32 Identities=9% Similarity=0.069 Sum_probs=21.1
Q ss_pred cchHHHHHHHHHHHHhcC--CCeEEEEeeeeecc
Q psy6043 100 KCGAAVVAGFMKAVAMLQ--PKVRVVGALAVVRN 131 (282)
Q Consensus 100 M~GAAaV~ga~~a~a~l~--~~vnV~~il~~~EN 131 (282)
++|-|+.+.+++++.+.+ ++.+|+-++-.-|=
T Consensus 114 Kgglaa~l~A~~~l~~~~~~~~~~v~~~~~~dEE 147 (376)
T PRK07473 114 KGGNYLALEAIRQLARAGITTPLPITVLFTPDEE 147 (376)
T ss_pred hHHHHHHHHHHHHHHHcCCCCCCCEEEEEeCCcc
Confidence 467888899999998765 34555544444443
No 80
>PRK06156 hypothetical protein; Provisional
Probab=22.15 E-value=4.3e+02 Score=26.79 Aligned_cols=31 Identities=16% Similarity=-0.044 Sum_probs=19.9
Q ss_pred cchHHHHHHHHHHHHhcCC--CeEEEEeeeeec
Q psy6043 100 KCGAAVVAGFMKAVAMLQP--KVRVVGALAVVR 130 (282)
Q Consensus 100 M~GAAaV~ga~~a~a~l~~--~vnV~~il~~~E 130 (282)
++|.|+.+-++.++.+.+. +.+|..++..-|
T Consensus 156 Kgg~a~~l~a~~~l~~~~~~~~~~i~~~~~~dE 188 (520)
T PRK06156 156 KGAIVTALYAMKAIKDSGLPLARRIELLVYTTE 188 (520)
T ss_pred hHHHHHHHHHHHHHHHcCCCCCceEEEEEeccc
Confidence 3567777788888877653 356665555554
No 81
>COG3480 SdrC Predicted secreted protein containing a PDZ domain [Signal transduction mechanisms]
Probab=22.04 E-value=1.5e+02 Score=29.39 Aligned_cols=56 Identities=16% Similarity=0.264 Sum_probs=42.9
Q ss_pred HHHHHHhcCCCeEEE--E--eeeeeccCCCCCCCCCCceEEccCCeEEEecCCCcccceehhhhhHHHHH
Q psy6043 109 FMKAVAMLQPKVRVV--G--ALAVVRNSCGENSYVSDEVVVSRAGKRIRVTNTDAEGRFAMADVLAHMAE 174 (282)
Q Consensus 109 a~~a~a~l~~~vnV~--~--il~~~EN~i~~~a~~pgDVi~s~~GkTVEI~NTDAEGRLvLADaL~ya~~ 174 (282)
...|...++.|+++. | ++-..||++.-.-+.+||-|++-||+.++ -..|.+.|.+.
T Consensus 114 ~y~A~~~a~~pv~~~y~gvyv~~v~~~~~~~gkl~~gD~i~avdg~~f~----------s~~e~i~~v~~ 173 (342)
T COG3480 114 IYAAYKYAGKPVEVTYAGVYVLSVIDNSPFKGKLEAGDTIIAVDGEPFT----------SSDELIDYVSS 173 (342)
T ss_pred HHHHHHHcCCceEEEEeeEEEEEccCCcchhceeccCCeEEeeCCeecC----------CHHHHHHHHhc
Confidence 345566678886664 2 46667899999999999999999999884 24688888754
No 82
>PRK06446 hypothetical protein; Provisional
Probab=21.66 E-value=4.2e+02 Score=25.86 Aligned_cols=22 Identities=27% Similarity=0.459 Sum_probs=18.4
Q ss_pred HHHHHHHHHhhcCCCCeEEEEec
Q psy6043 4 PKVEEYILETFKNTPSIKINIIK 26 (282)
Q Consensus 4 ~~~a~~~~~~~~~~~~v~v~v~~ 26 (282)
...++++.+.+++.+ +++++++
T Consensus 25 ~~~a~~l~~~l~~~G-~~ve~~~ 46 (436)
T PRK06446 25 EETANYLKDTMEKLG-IKANIER 46 (436)
T ss_pred HHHHHHHHHHHHHCC-CeEEEEe
Confidence 377889999999999 9998764
No 83
>TIGR02037 degP_htrA_DO periplasmic serine protease, Do/DeqQ family. This family consists of a set proteins various designated DegP, heat shock protein HtrA, and protease DO. The ortholog in Pseudomonas aeruginosa is designated MucD and is found in an operon that controls mucoid phenotype. This family also includes the DegQ (HhoA) paralog in E. coli which can rescue a DegP mutant, but not the smaller DegS paralog, which cannot. Members of this family are located in the periplasm and have separable functions as both protease and chaperone. Members have a trypsin domain and two copies of a PDZ domain. This protein protects bacteria from thermal and other stresses and may be important for the survival of bacterial pathogens.// The chaperone function is dominant at low temperatures, whereas the proteolytic activity is turned on at elevated temperatures.
Probab=21.24 E-value=55 Score=32.23 Aligned_cols=28 Identities=18% Similarity=0.228 Sum_probs=21.5
Q ss_pred eeeeeccCCCCCC-CCCCceEEccCCeEE
Q psy6043 125 ALAVVRNSCGENS-YVSDEVVVSRAGKRI 152 (282)
Q Consensus 125 il~~~EN~i~~~a-~~pgDVi~s~~GkTV 152 (282)
+.-+.+|.+...+ +++||+|++.||+.|
T Consensus 366 V~~V~~~SpA~~aGL~~GDvI~~Ing~~V 394 (428)
T TIGR02037 366 VTKVVSGSPAARAGLQPGDVILSVNQQPV 394 (428)
T ss_pred EEEeCCCCHHHHcCCCCCCEEEEECCEEc
Confidence 4445667665543 999999999999987
No 84
>TIGR00054 RIP metalloprotease RseP. A model that detects fragments as well matches a number of members of the PEPTIDASE FAMILY S2C. The region of match appears not to overlap the active site domain.
Probab=20.75 E-value=47 Score=32.92 Aligned_cols=24 Identities=21% Similarity=0.315 Sum_probs=19.2
Q ss_pred eccCCCCCC-CCCCceEEccCCeEE
Q psy6043 129 VRNSCGENS-YVSDEVVVSRAGKRI 152 (282)
Q Consensus 129 ~EN~i~~~a-~~pgDVi~s~~GkTV 152 (282)
.+|.|-..+ .+|||+|++-||+.|
T Consensus 211 ~~~SpA~~aGL~~GD~Iv~Vng~~V 235 (420)
T TIGR00054 211 TPNSPAEKAGLKEGDYIQSINGEKL 235 (420)
T ss_pred CCCCHHHHcCCCCCCEEEEECCEEC
Confidence 456665544 899999999999987
No 85
>TIGR01902 dapE-lys-deAc N-acetyl-ornithine/N-acetyl-lysine deacetylase. This clade of mainly archaeal and related bacterial species contains two characterized enzymes, an deacetylase with specificity for both N-acetyl-ornithine and N-acetyl-lysine from Thermus which is found within a lysine biosynthesis operon, and a fusion protein with acetyl-glutamate kinase (an enzyme of ornithine biosynthesis) from Lactobacillus. It is possible that all of the sequences within this clade have dual specificity, or that a mix of specificities have evolved within this clade.
Probab=20.38 E-value=6.7e+02 Score=23.27 Aligned_cols=18 Identities=17% Similarity=0.353 Sum_probs=15.1
Q ss_pred HHHHHHHHHhhcCCCCeEE
Q psy6043 4 PKVEEYILETFKNTPSIKI 22 (282)
Q Consensus 4 ~~~a~~~~~~~~~~~~v~v 22 (282)
...++++++.+++++ +++
T Consensus 17 ~~~~~~l~~~l~~~g-~~~ 34 (336)
T TIGR01902 17 ANAAKFLEEISKDLG-LKL 34 (336)
T ss_pred HHHHHHHHHHHHHcC-CEE
Confidence 367889999999998 877
No 86
>cd04454 S1_Rrp4_like S1_Rrp4_like: Rrp4-like, S1-like RNA-binding domain. S1-like RNA-binding domains are found in a wide variety of RNA-associated proteins. Rrp4 protein, and Rrp40 and Csl4 proteins, also represented in this group, are subunits of the exosome complex. The exosome plays a central role in 3' to 5' RNA processing and degradation in eukarytes and archaea. Its functions include the removal of incorrectly processed RNA and the maintenance of proper levels of mRNA, rRNA and a number of small RNA species. In Saccharomyces cerevisiae, the exosome includes nine core components, six of which are homologous to bacterial RNase PH. These form a hexameric ring structure. The other three subunits (RrP4, Rrp40, and Csl4) contain an S1 RNA binding domain and are part of the "S1 pore structure".
Probab=20.26 E-value=1.1e+02 Score=22.69 Aligned_cols=38 Identities=8% Similarity=0.096 Sum_probs=25.3
Q ss_pred EEEeeeeeccCCC-----CCCCCCCceEEccCCeEEEecCCCcccceeh
Q psy6043 122 VVGALAVVRNSCG-----ENSYVSDEVVVSRAGKRIRVTNTDAEGRFAM 165 (282)
Q Consensus 122 V~~il~~~EN~i~-----~~a~~pgDVi~s~~GkTVEI~NTDAEGRLvL 165 (282)
..|+++..|-.-. ..-+++||.|. ..|.+.|.++++.|
T Consensus 30 ~~g~l~~~~~~~~~~~~~~~~~~~GD~i~------~~V~~~~~~~~i~L 72 (82)
T cd04454 30 GTARLEDSSATEKDKKEIRKSLQPGDLIL------AKVISLGDDMNVLL 72 (82)
T ss_pred ceEEeechhccCcchHHHHhcCCCCCEEE------EEEEEeCCCCCEEE
Confidence 4566776654322 33489999986 46788877777665
No 87
>PRK07338 hypothetical protein; Provisional
Probab=20.07 E-value=4.1e+02 Score=25.36 Aligned_cols=31 Identities=13% Similarity=-0.008 Sum_probs=21.7
Q ss_pred chHHHHHHHHHHHHhcC--CCeEEEEeeeeecc
Q psy6043 101 CGAAVVAGFMKAVAMLQ--PKVRVVGALAVVRN 131 (282)
Q Consensus 101 ~GAAaV~ga~~a~a~l~--~~vnV~~il~~~EN 131 (282)
+|.|+.+.+++++.+.+ ++.+|.-++...|=
T Consensus 132 gg~aa~l~a~~~l~~~~~~~~~~i~~~~~~dEE 164 (402)
T PRK07338 132 GGIVVMLAALLAFERSPLADKLGYDVLINPDEE 164 (402)
T ss_pred HHHHHHHHHHHHHHhcCCCCCCCEEEEEECCcc
Confidence 46888899999998755 34566655655555
Done!