Query 031045
Match_columns 166
No_of_seqs 146 out of 1266
Neff 8.9
Searched_HMMs 46136
Date Fri Mar 29 08:25:15 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/031045.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/031045hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1282 Serine carboxypeptidas 100.0 8.5E-40 1.9E-44 265.6 12.0 165 1-166 206-408 (454)
2 PLN02213 sinapoylglucose-malat 100.0 2.7E-36 5.9E-41 238.6 13.1 165 1-166 89-277 (319)
3 PLN03016 sinapoylglucose-malat 100.0 2.4E-35 5.2E-40 240.8 12.7 165 1-166 203-391 (433)
4 PLN02209 serine carboxypeptida 100.0 3.9E-35 8.5E-40 239.6 12.2 165 1-166 205-395 (437)
5 PTZ00472 serine carboxypeptida 100.0 6.4E-33 1.4E-37 228.6 12.9 162 1-166 209-414 (462)
6 PF00450 Peptidase_S10: Serine 100.0 2.3E-32 5E-37 222.2 8.0 164 1-165 174-375 (415)
7 KOG1283 Serine carboxypeptidas 99.7 5.9E-17 1.3E-21 125.2 3.7 153 1-156 159-359 (414)
8 COG2939 Carboxypeptidase C (ca 99.2 1.4E-11 3E-16 100.9 5.1 152 1-156 235-434 (498)
9 PF00681 Plectin: Plectin repe 87.1 0.55 1.2E-05 26.1 2.0 32 6-37 12-43 (45)
10 PF08386 Abhydrolase_4: TAP-li 77.2 3.5 7.6E-05 27.0 3.2 29 122-150 34-62 (103)
11 PF00326 Peptidase_S9: Prolyl 73.8 4.1 8.8E-05 29.9 3.2 31 121-151 143-173 (213)
12 PF03583 LIP: Secretory lipase 73.1 4 8.7E-05 32.1 3.1 31 122-152 219-249 (290)
13 PF07849 DUF1641: Protein of u 69.2 1.7 3.6E-05 23.9 0.1 16 81-96 16-31 (42)
14 PF09851 SHOCT: Short C-termin 68.5 6.4 0.00014 19.9 2.3 19 19-37 9-27 (31)
15 PF07519 Tannase: Tannase and 66.7 5.9 0.00013 33.5 3.0 38 111-148 342-379 (474)
16 PF12695 Abhydrolase_5: Alpha/ 63.8 10 0.00022 25.4 3.3 34 116-149 98-131 (145)
17 PRK13604 luxD acyl transferase 61.5 14 0.00031 29.4 4.1 28 122-149 202-229 (307)
18 PLN02298 hydrolase, alpha/beta 59.9 13 0.00028 29.2 3.7 30 122-151 251-280 (330)
19 COG0400 Predicted esterase [Ge 59.3 11 0.00024 28.2 2.9 39 121-159 145-183 (207)
20 PF05414 DUF1717: Viral domain 58.8 6.8 0.00015 24.9 1.5 11 122-132 40-50 (101)
21 TIGR01675 plant-AP plant acid 56.6 26 0.00056 26.7 4.6 41 110-152 124-164 (229)
22 TIGR01680 Veg_Stor_Prot vegeta 56.1 29 0.00062 27.3 4.8 41 110-152 149-189 (275)
23 smart00250 PLEC Plectin repeat 55.6 6.2 0.00013 20.9 0.8 26 6-31 12-37 (38)
24 PHA02857 monoglyceride lipase; 54.7 21 0.00046 27.0 4.0 29 121-149 208-236 (276)
25 PF10503 Esterase_phd: Esteras 54.5 13 0.00029 28.0 2.8 26 122-147 169-194 (220)
26 TIGR01840 esterase_phb esteras 53.4 14 0.0003 27.1 2.7 27 123-149 169-195 (212)
27 PF05068 MtlR: Mannitol repres 50.8 19 0.0004 26.2 2.8 28 10-37 62-89 (170)
28 PF03767 Acid_phosphat_B: HAD 50.7 29 0.00064 26.2 4.1 41 110-152 119-159 (229)
29 PF02739 5_3_exonuc_N: 5'-3' e 49.0 19 0.00042 25.9 2.8 26 110-135 112-138 (169)
30 TIGR01607 PST-A Plasmodium sub 48.4 26 0.00057 27.8 3.7 29 122-150 270-298 (332)
31 TIGR02427 protocat_pcaD 3-oxoa 46.9 37 0.00081 24.3 4.2 30 121-150 192-221 (251)
32 PRK10749 lysophospholipase L2; 46.4 21 0.00046 28.2 2.9 27 122-148 259-285 (330)
33 cd01427 HAD_like Haloacid deha 45.9 60 0.0013 20.9 4.8 36 110-150 28-63 (139)
34 TIGR03611 RutD pyrimidine util 44.2 33 0.00072 24.9 3.5 27 122-148 198-224 (257)
35 PRK11460 putative hydrolase; P 43.9 29 0.00063 26.0 3.2 29 121-149 147-175 (232)
36 PLN02652 hydrolase; alpha/beta 43.3 29 0.00062 28.6 3.3 28 122-149 324-351 (395)
37 PLN02872 triacylglycerol lipas 42.1 33 0.00071 28.3 3.4 28 122-149 325-352 (395)
38 PF09664 DUF2399: Protein of u 41.5 31 0.00067 24.5 2.8 24 110-134 54-77 (152)
39 PF02230 Abhydrolase_2: Phosph 41.5 32 0.0007 25.3 3.1 27 122-148 155-181 (216)
40 PRK10566 esterase; Provisional 41.1 28 0.0006 25.9 2.7 31 122-152 186-216 (249)
41 PF03172 Sp100: Sp100 domain; 40.9 22 0.00048 23.5 1.8 23 19-41 26-51 (103)
42 PF00702 Hydrolase: haloacid d 38.8 25 0.00054 25.3 2.1 24 110-133 131-154 (215)
43 PRK13840 sucrose phosphorylase 38.1 27 0.00059 29.8 2.4 42 113-160 69-112 (495)
44 TIGR02679 conserved hypothetic 36.8 33 0.00072 28.3 2.7 23 111-134 287-309 (385)
45 PF00561 Abhydrolase_1: alpha/ 35.5 75 0.0016 22.6 4.2 29 120-148 173-201 (230)
46 COG4474 Uncharacterized protei 35.3 78 0.0017 23.1 4.0 29 112-147 32-60 (180)
47 PF01624 MutS_I: MutS domain I 35.1 46 0.001 22.0 2.8 22 110-131 65-86 (113)
48 TIGR01738 bioH putative pimelo 34.9 63 0.0014 23.0 3.8 27 122-148 188-214 (245)
49 PLN02442 S-formylglutathione h 34.4 43 0.00094 25.9 2.9 54 90-148 190-244 (283)
50 TIGR01689 EcbF-BcbF capsule bi 34.2 1.4E+02 0.003 20.4 5.1 50 110-159 28-89 (126)
51 TIGR01836 PHA_synth_III_C poly 34.0 52 0.0011 26.2 3.4 28 122-149 286-313 (350)
52 COG2267 PldB Lysophospholipase 33.8 58 0.0013 25.6 3.6 32 121-152 227-259 (298)
53 PF12697 Abhydrolase_6: Alpha/ 33.6 1E+02 0.0022 21.5 4.6 28 121-148 175-202 (228)
54 TIGR03056 bchO_mg_che_rel puta 32.9 57 0.0012 24.2 3.3 27 122-148 220-246 (278)
55 PLN02385 hydrolase; alpha/beta 32.5 66 0.0014 25.5 3.7 29 122-150 279-307 (349)
56 PRK11001 mtlR mannitol repress 31.1 55 0.0012 23.8 2.7 28 10-37 60-87 (171)
57 PHA02567 rnh RnaseH; Provision 30.7 51 0.0011 26.3 2.7 45 88-134 113-158 (304)
58 PRK07581 hypothetical protein; 30.4 87 0.0019 24.6 4.1 27 122-148 275-301 (339)
59 PRK14511 maltooligosyl trehalo 29.8 55 0.0012 30.1 3.0 46 110-160 70-120 (879)
60 PLN03087 BODYGUARD 1 domain co 29.6 99 0.0022 26.3 4.4 35 115-149 410-445 (481)
61 PRK14507 putative bifunctional 28.5 49 0.0011 32.7 2.6 43 113-160 811-858 (1693)
62 PRK10349 carboxylesterase BioH 28.4 99 0.0021 22.9 3.9 28 121-148 195-222 (256)
63 TIGR02401 trehalose_TreY malto 27.6 61 0.0013 29.6 2.9 46 110-160 66-116 (825)
64 PRK03592 haloalkane dehalogena 26.9 68 0.0015 24.5 2.9 27 122-148 228-254 (295)
65 TIGR01249 pro_imino_pep_1 prol 26.7 1.3E+02 0.0028 23.3 4.4 28 122-149 248-275 (306)
66 TIGR03343 biphenyl_bphD 2-hydr 26.3 1.2E+02 0.0026 22.7 4.1 27 122-148 223-249 (282)
67 PF09456 RcsC: RcsC Alpha-Beta 26.1 57 0.0012 21.2 1.9 23 110-132 10-33 (92)
68 KOG4178 Soluble epoxide hydrol 25.9 70 0.0015 25.8 2.7 22 122-143 258-279 (322)
69 COG0447 MenB Dihydroxynaphthoi 25.6 1.2E+02 0.0026 23.3 3.7 37 83-131 32-72 (282)
70 cd08327 CARD_RAIDD Caspase act 25.1 89 0.0019 20.3 2.7 21 17-37 26-46 (94)
71 PF15237 PTRF_SDPR: PTRF/SDPR 24.6 58 0.0013 25.0 2.0 19 115-133 95-114 (246)
72 cd08330 CARD_ASC_NALP1 Caspase 24.3 96 0.0021 19.4 2.7 25 14-38 17-41 (82)
73 PF06821 Ser_hydrolase: Serine 23.9 95 0.0021 22.2 3.0 28 123-150 115-142 (171)
74 PRK05077 frsA fermentation/res 23.5 1E+02 0.0022 25.5 3.4 27 122-148 355-381 (414)
75 COG1506 DAP2 Dipeptidyl aminop 22.9 70 0.0015 28.0 2.4 33 122-154 551-583 (620)
76 PF11165 DUF2949: Protein of u 22.9 79 0.0017 18.6 1.9 21 16-36 33-53 (58)
77 cd08332 CARD_CASP2 Caspase act 22.8 1.1E+02 0.0023 19.6 2.7 25 13-37 21-45 (90)
78 TIGR02240 PHA_depoly_arom poly 22.8 1E+02 0.0023 23.2 3.2 28 122-149 207-234 (276)
79 PF14926 DUF4498: Domain of un 22.4 59 0.0013 25.1 1.7 43 79-123 49-107 (247)
80 TIGR01250 pro_imino_pep_2 prol 22.4 1.4E+02 0.003 21.9 3.7 28 120-148 229-256 (288)
81 PRK09482 flap endonuclease-lik 22.3 1E+02 0.0023 23.9 3.0 26 110-135 110-136 (256)
82 COG2427 Uncharacterized conser 22.2 34 0.00073 24.2 0.3 16 81-96 119-134 (148)
83 PRK00870 haloalkane dehalogena 22.1 1.3E+02 0.0028 23.1 3.6 30 118-148 235-264 (302)
84 PHA02450 hypothetical protein 22.0 20 0.00044 20.0 -0.7 20 130-149 32-51 (53)
85 PF06014 DUF910: Bacterial pro 21.4 1.1E+02 0.0023 18.4 2.3 16 21-36 37-52 (62)
86 cd06167 LabA_like LabA_like pr 21.3 1.1E+02 0.0023 20.9 2.8 22 110-131 111-132 (149)
87 PF12399 BCA_ABC_TP_C: Branche 21.3 51 0.0011 15.5 0.7 12 82-93 9-20 (23)
88 PF04214 DUF411: Protein of un 21.2 1.5E+02 0.0032 18.2 2.9 31 86-121 9-51 (70)
89 KOG0412 Golgi transport comple 21.0 16 0.00034 32.4 -1.9 59 81-141 434-492 (773)
90 smart00775 LNS2 LNS2 domain. T 20.7 1.7E+02 0.0037 20.6 3.7 36 110-147 31-66 (157)
91 COG4359 Uncharacterized conser 20.4 1.1E+02 0.0025 22.8 2.7 29 110-138 77-105 (220)
92 PRK08775 homoserine O-acetyltr 20.3 1.1E+02 0.0025 24.1 3.0 27 122-148 277-303 (343)
No 1
>KOG1282 consensus Serine carboxypeptidases (lysosomal cathepsin A) [Posttranslational modification, protein turnover, chaperones; Amino acid transport and metabolism]
Probab=100.00 E-value=8.5e-40 Score=265.63 Aligned_cols=165 Identities=39% Similarity=0.703 Sum_probs=136.7
Q ss_pred CeEecccCCcccccchHHHHHHHhCCCCHHHHHHHHhcCCCCc-------cCcccchhhhHHHH-HHhhhhhccc-----
Q 031045 1 MQVGNALTDDYHDYLGLFQFWWSAGLISDDTYKQLKLLCDYES-------FIHPSCTASVSQSN-RLLKRMHVVG----- 67 (166)
Q Consensus 1 i~IGNg~~d~~~~~~~~~~~~~~~glI~~~~~~~~~~~C~~~~-------~~~~~C~~~~~~~~-~~~~~~~~~~----- 67 (166)
++||||+||+..|.+++++|+|+|||||+++++.+++.|.+.. +.+..|..+..... ...+.+..+.
T Consensus 206 ~~IGNg~td~~~~~~~~~~~a~~h~liSde~~~~l~~~C~~~~~~~~~~~~~~~~C~~~~~~~~~~~~~~i~~y~i~~~~ 285 (454)
T KOG1282|consen 206 YAIGNGLTDPEIDYNGRIPFAWGHGLISDELYESLKRACDFSSDNYANVDPSNTKCNKAVEEFDSKTTGDIDNYYILTPD 285 (454)
T ss_pred EEecCcccCccccccchhhhhhhcccCCHHHHHHHHHHhccCcccccccCCchhHHHHHHHHHHHHHhccCchhhhcchh
Confidence 5899999999999999999999999999999999999998632 23467887766554 2222111111
Q ss_pred -----------CCCCCCCCCCcchhhhccCchHHHhhhCCCCCccccCccccc------------ccHHHHHHHHhcC-c
Q 031045 68 -----------HASEKYDPCTEKHSVVYFNQPEVQKALHVIPAVALAKWETCR------------IVLDIYHELIHSG-L 123 (166)
Q Consensus 68 -----------~~~~~~~~c~~~~~~~ylN~~~V~~aLhv~~~~~~~~w~~c~------------~~~~~~~~ll~~~-i 123 (166)
.....+++|..++..+|||+++||+||||+..... +|++|| +|+|++.+++.++ +
T Consensus 286 C~~~~~~~~~~~~~~~~~~c~~~~~~~ylN~~~VrkALh~~~~~~~-~W~~Cn~~v~~~~~~~~~sm~p~~~~~~~~~~~ 364 (454)
T KOG1282|consen 286 CYPTSYELKKPTDCYGYDPCLSDYAEKYLNRPEVRKALHANKTSIG-KWERCNDEVNYNYNDDIKSMLPIHKKLIASGGY 364 (454)
T ss_pred hccccccccccccccccCCchhhhHHHhcCCHHHHHHhCCCCCCCC-cccccChhhhcccccCccchHHHHHHHhhcCce
Confidence 12345678987777999999999999999876322 699999 8899999999855 9
Q ss_pred eEEEEecCCCcccChHHHHHHHHHcCCCCcccccccccC-CccC
Q 031045 124 RIWMFSGDTDAVIPVTSARYSIDALNLPTVKPWRAWYDE-GQVG 166 (166)
Q Consensus 124 rvLiY~Gd~D~i~n~~gt~~~i~~L~w~~~~~~~~W~~~-~qva 166 (166)
||||||||+|++||++||++||++|+++.+.+|+||+++ +|||
T Consensus 365 rvliysGD~D~~~p~~gt~~~i~~L~~~~~~~~~pW~~~~~qva 408 (454)
T KOG1282|consen 365 RVLIYSGDHDLVVPFLGTQAWIKSLNLSITDEWRPWYHKGGQVA 408 (454)
T ss_pred EEEEEeCCcceeCcchhhHHHHHhccCccccCccCCccCCCcee
Confidence 999999999999999999999999999999999999995 7986
No 2
>PLN02213 sinapoylglucose-malate O-sinapoyltransferase/ carboxypeptidase
Probab=100.00 E-value=2.7e-36 Score=238.65 Aligned_cols=165 Identities=22% Similarity=0.394 Sum_probs=124.9
Q ss_pred CeEecccCCcccccchHHHHHHHhCCCCHHHHHHHHhcCCCCc----cCcccchhhhHHHHHHhhhhhcccCC---CCCC
Q 031045 1 MQVGNALTDDYHDYLGLFQFWWSAGLISDDTYKQLKLLCDYES----FIHPSCTASVSQSNRLLKRMHVVGHA---SEKY 73 (166)
Q Consensus 1 i~IGNg~~d~~~~~~~~~~~~~~~glI~~~~~~~~~~~C~~~~----~~~~~C~~~~~~~~~~~~~~~~~~~~---~~~~ 73 (166)
|+||||+|||..|..++.+|+|.||||++++++.+++.|.... +....|..+........+..+.++.. ...+
T Consensus 89 i~IGNg~t~~~~~~~~~~~~~~~~gli~~~~~~~~~~~c~~~~~~~~~~~~~c~~~~~~~~~~~~~~~~~~~~~~~~~~~ 168 (319)
T PLN02213 89 YMLGNPVTYMDFEQNFRIPYAYGMGLISDEIYEPMKRICNGNYYNVDPSNTQCLKLTEEYHKCTAKINIHHILTPDCDVT 168 (319)
T ss_pred EEeCCCCCCccccchhHhhHHHhcCCCCHHHHHHHHHhcCCCccCCCCCcHHHHHHHHHHHHHHhcCCHhhcccCcccCc
Confidence 6899999999999999999999999999999999999996321 22356765544332222222111100 1111
Q ss_pred ----CCCCc---chhhhccCchHHHhhhCCCCCccccCccccc----------ccHHHHHHHHhcCceEEEEecCCCccc
Q 031045 74 ----DPCTE---KHSVVYFNQPEVQKALHVIPAVALAKWETCR----------IVLDIYHELIHSGLRIWMFSGDTDAVI 136 (166)
Q Consensus 74 ----~~c~~---~~~~~ylN~~~V~~aLhv~~~~~~~~w~~c~----------~~~~~~~~ll~~~irvLiY~Gd~D~i~ 136 (166)
..|.. ..+.+|||+++||+||||++.. ...|..|+ ++++.+.++|.+|+||||||||+|++|
T Consensus 169 ~~~~~~c~~~~~~~~~~ylN~~~V~~aL~v~~~~-~~~w~~c~~~v~~~~d~~~~~~~~~~~l~~~i~VliY~Gd~D~ic 247 (319)
T PLN02213 169 NVTSPDCYYYPYHLIECWANDESVREALHIEKGS-KGKWARCNRTIPYNHDIVSSIPYHMNNSISGYRSLIYSGDHDIAV 247 (319)
T ss_pred cCCCCCcccchhHHHHHHhCCHHHHHHhCcCCCC-CCCCccCCcccccccccccchHHHHHHHhcCceEEEEECCcCeeC
Confidence 23542 3578999999999999997521 14799999 445565666667999999999999999
Q ss_pred ChHHHHHHHHHcCCCCcccccccccCCccC
Q 031045 137 PVTSARYSIDALNLPTVKPWRAWYDEGQVG 166 (166)
Q Consensus 137 n~~gt~~~i~~L~w~~~~~~~~W~~~~qva 166 (166)
|++||++|+++|+|+++++|+||++++|+|
T Consensus 248 n~~g~~~wi~~L~w~~~~~~~~w~~~~~~~ 277 (319)
T PLN02213 248 PFLATQAWIRSLNYSPIHNWRPWMINNQIA 277 (319)
T ss_pred CcHhHHHHHHhcCCCCCCCCccccCCCEee
Confidence 999999999999999999999999877764
No 3
>PLN03016 sinapoylglucose-malate O-sinapoyltransferase
Probab=100.00 E-value=2.4e-35 Score=240.78 Aligned_cols=165 Identities=22% Similarity=0.399 Sum_probs=125.7
Q ss_pred CeEecccCCcccccchHHHHHHHhCCCCHHHHHHHHhcCCCC----ccCcccchhhhHHHHHHhhhhhcccCC---CCC-
Q 031045 1 MQVGNALTDDYHDYLGLFQFWWSAGLISDDTYKQLKLLCDYE----SFIHPSCTASVSQSNRLLKRMHVVGHA---SEK- 72 (166)
Q Consensus 1 i~IGNg~~d~~~~~~~~~~~~~~~glI~~~~~~~~~~~C~~~----~~~~~~C~~~~~~~~~~~~~~~~~~~~---~~~- 72 (166)
|+||||+|||..|..++.+|+|+||||++++++.+++.|... .+....|..+........+..+.++.. ...
T Consensus 203 i~iGNg~t~~~~~~~~~~~y~~~~glI~~~~~~~i~~~c~~~~~~~~~~~~~C~~~~~~~~~~~~~~n~yni~~~~~~~~ 282 (433)
T PLN03016 203 YMLGNPVTYMDFEQNFRIPYAYGMGLISDEIYEPMKRICNGNYYNVDPSNTQCLKLTEEYHKCTAKINIHHILTPDCDVT 282 (433)
T ss_pred eEecCCCcCchhhhhhHHHHHHhcCCCCHHHHHHHHHHhccccccCCCchHHHHHHHHHHHHHhcCCChhhccCCccccc
Confidence 689999999999999999999999999999999999999632 122356765554333222222221110 000
Q ss_pred ---CCCCCc---chhhhccCchHHHhhhCCCCCccccCccccc----------ccHHHHHHHHhcCceEEEEecCCCccc
Q 031045 73 ---YDPCTE---KHSVVYFNQPEVQKALHVIPAVALAKWETCR----------IVLDIYHELIHSGLRIWMFSGDTDAVI 136 (166)
Q Consensus 73 ---~~~c~~---~~~~~ylN~~~V~~aLhv~~~~~~~~w~~c~----------~~~~~~~~ll~~~irvLiY~Gd~D~i~ 136 (166)
...|.. ..+++|||+++||+||||++.. ...|..|+ ++++.+..++.+|+||||||||+|++|
T Consensus 283 ~~~~~~c~~~~~~~~~~ylN~~~V~~aL~v~~~~-~~~w~~cn~~v~~~~d~~~~~~~~~~~l~~~irVLiY~Gd~D~ic 361 (433)
T PLN03016 283 NVTSPDCYYYPYHLIECWANDESVREALHIEKGS-KGKWARCNRTIPYNHDIVSSIPYHMNNSISGYRSLIYSGDHDIAV 361 (433)
T ss_pred ccCCCcccccchHHHHHHhCCHHHHHHhCCCCCC-CCCCccCCcccccccccchhhHHHHHHHhcCceEEEEECCccccC
Confidence 123543 3578999999999999997521 14799999 445666666667999999999999999
Q ss_pred ChHHHHHHHHHcCCCCcccccccccCCccC
Q 031045 137 PVTSARYSIDALNLPTVKPWRAWYDEGQVG 166 (166)
Q Consensus 137 n~~gt~~~i~~L~w~~~~~~~~W~~~~qva 166 (166)
|++||++|+++|+|+++++|+||++++|+|
T Consensus 362 n~~Gt~~wi~~L~w~~~~~~~~w~~~~~~~ 391 (433)
T PLN03016 362 PFLATQAWIRSLNYSPIHNWRPWMINNQIA 391 (433)
T ss_pred CcHhHHHHHHhCCCCCCCCcccccCCCEee
Confidence 999999999999999999999999887764
No 4
>PLN02209 serine carboxypeptidase
Probab=100.00 E-value=3.9e-35 Score=239.61 Aligned_cols=165 Identities=22% Similarity=0.367 Sum_probs=126.1
Q ss_pred CeEecccCCcccccchHHHHHHHhCCCCHHHHHHHHhcCCCC----ccCcccchhhhHHHHHHhhhhhccc---------
Q 031045 1 MQVGNALTDDYHDYLGLFQFWWSAGLISDDTYKQLKLLCDYE----SFIHPSCTASVSQSNRLLKRMHVVG--------- 67 (166)
Q Consensus 1 i~IGNg~~d~~~~~~~~~~~~~~~glI~~~~~~~~~~~C~~~----~~~~~~C~~~~~~~~~~~~~~~~~~--------- 67 (166)
|+||||+|||..|..++.+|+|+||||++++|+.+++.|... .+.+..|..+........+.++.+.
T Consensus 205 i~igng~td~~~q~~~~~~y~~~~glI~~~~~~~~~~~c~~~~~~~~~~~~~C~~~i~~~~~~~~~~~~~~~~~~~c~~~ 284 (437)
T PLN02209 205 YVLGNPITHIEFEQNFRIPYAHGMSLISDELYESLKRICKGNYFSVDPSNKKCLKLVEEYHKCTDNINSHHTLIANCDDS 284 (437)
T ss_pred EEecCcccChhhhhhhHHHHHhccCCCCHHHHHHHHHhcccccccCCCChHHHHHHHHHHHHHhhcCCcccccccccccc
Confidence 689999999999999999999999999999999999999631 1234568766544322222221110
Q ss_pred CCCCCCCCCCc---chhhhccCchHHHhhhCCCCCccccCccccc----------ccHHHHHHHHhcCceEEEEecCCCc
Q 031045 68 HASEKYDPCTE---KHSVVYFNQPEVQKALHVIPAVALAKWETCR----------IVLDIYHELIHSGLRIWMFSGDTDA 134 (166)
Q Consensus 68 ~~~~~~~~c~~---~~~~~ylN~~~V~~aLhv~~~~~~~~w~~c~----------~~~~~~~~ll~~~irvLiY~Gd~D~ 134 (166)
.......+|.. ..+..|||+|+||+||||+... ...|..|+ ++++.+.++|.+|+|||||+||.|+
T Consensus 285 ~~~~~~~~c~~~~~~~~~~ylN~~~V~~aL~v~~~~-~~~w~~~~~~~~~~~d~~~~~~~~~~~l~~girVLiY~GD~D~ 363 (437)
T PLN02209 285 NTQHISPDCYYYPYHLVECWANNESVREALHVDKGS-IGEWIRDHRGIPYKSDIRSSIPYHMNNSINGYRSLIFSGDHDI 363 (437)
T ss_pred ccccCCCCcccccHHHHHHHhCCHHHHHHhCCCCCC-CCCCccccchhhcccchhhhHHHHHHHHhcCceEEEEECCccc
Confidence 11112234643 3578999999999999998532 24799998 4455555666689999999999999
Q ss_pred ccChHHHHHHHHHcCCCCcccccccccCCccC
Q 031045 135 VIPVTSARYSIDALNLPTVKPWRAWYDEGQVG 166 (166)
Q Consensus 135 i~n~~gt~~~i~~L~w~~~~~~~~W~~~~qva 166 (166)
+||++||++|+++|+|+++++|++|++++|+|
T Consensus 364 icn~~Gte~wi~~L~w~~~~~~~~w~~~~q~a 395 (437)
T PLN02209 364 TMPFQATQAWIKSLNYSIIDDWRPWMIKGQIA 395 (437)
T ss_pred cCCcHhHHHHHHhcCCccCCCeeeeEECCEee
Confidence 99999999999999999999999999888764
No 5
>PTZ00472 serine carboxypeptidase (CBP1); Provisional
Probab=100.00 E-value=6.4e-33 Score=228.57 Aligned_cols=162 Identities=23% Similarity=0.443 Sum_probs=122.3
Q ss_pred CeEecccCCcccccchHHHHHHH-------hCCCCHHHHHHHHhc---C-------CCCc-cCcccchhhhHHHHHHhh-
Q 031045 1 MQVGNALTDDYHDYLGLFQFWWS-------AGLISDDTYKQLKLL---C-------DYES-FIHPSCTASVSQSNRLLK- 61 (166)
Q Consensus 1 i~IGNg~~d~~~~~~~~~~~~~~-------~glI~~~~~~~~~~~---C-------~~~~-~~~~~C~~~~~~~~~~~~- 61 (166)
|+||||++||..|..++.+|+|+ +|+|++++++.+++. | .... .....|..+...|.....
T Consensus 209 i~IGNg~~dp~~q~~~~~~~a~~~~~~~~~~~li~~~~~~~~~~~~~~c~~~~~~c~~~~~~~~~~c~~a~~~c~~~~~~ 288 (462)
T PTZ00472 209 LAVGNGLTDPYTQYASYPRLAWDWCKEKLGAPCVSEEAYDEMSSMVPACQKKIKECNSNPDDADSSCSVARALCNEYIAV 288 (462)
T ss_pred EEEeccccChhhhcccHHHHhhhcccccCCCCccCHHHHHHHHHHHHHHHHHHHhccccCCCcchHHHHHHHHHHHHHHH
Confidence 68999999999999999999996 589999999988752 3 3211 123457655544433221
Q ss_pred ----hhhcccCCC-CCCCCCCc-chhhhccCchHHHhhhCCCCCccccCccccc-------------ccHHHHHHHHhcC
Q 031045 62 ----RMHVVGHAS-EKYDPCTE-KHSVVYFNQPEVQKALHVIPAVALAKWETCR-------------IVLDIYHELIHSG 122 (166)
Q Consensus 62 ----~~~~~~~~~-~~~~~c~~-~~~~~ylN~~~V~~aLhv~~~~~~~~w~~c~-------------~~~~~~~~ll~~~ 122 (166)
..+.|+... ...++|.. ..+.+|||+|+||+||||+. ..|+.|+ ++.+.++.||++|
T Consensus 289 ~~~~g~n~Ydi~~~c~~~~c~~~~~~~~yLN~~~Vq~AL~v~~----~~w~~c~~~V~~~~~~D~~~~~~~~l~~LL~~g 364 (462)
T PTZ00472 289 YSATGLNNYDIRKPCIGPLCYNMDNTIAFMNREDVQSSLGVKP----ATWQSCNMEVNLMFEMDWMKNFNYTVPGLLEDG 364 (462)
T ss_pred HHhcCCChhheeccCCCCCccCHHHHHHHhCCHHHHHHhCCCC----CCceeCCHHHHHHhhhccccchHHHHHHHHhcC
Confidence 122222111 11123653 56899999999999999984 3799999 5678999999999
Q ss_pred ceEEEEecCCCcccChHHHHHHHHHcCCCCcc-----ccccc-ccCCccC
Q 031045 123 LRIWMFSGDTDAVIPVTSARYSIDALNLPTVK-----PWRAW-YDEGQVG 166 (166)
Q Consensus 123 irvLiY~Gd~D~i~n~~gt~~~i~~L~w~~~~-----~~~~W-~~~~qva 166 (166)
+|||||+||.|++||++||++|+++|+|++++ +|++| .+++|+|
T Consensus 365 ikVLiYnGd~D~icn~~Gt~~wi~~L~w~g~~~f~~a~~~~w~~~~~~v~ 414 (462)
T PTZ00472 365 VRVMIYAGDMDFICNWIGNKAWTLALQWPGNAEFNAAPDVPFSAVDGRWA 414 (462)
T ss_pred ceEEEEECCcCeecCcHhHHHHHHhCCCCCccchhhcCccccEecCCEec
Confidence 99999999999999999999999999999975 46899 4566654
No 6
>PF00450 Peptidase_S10: Serine carboxypeptidase; InterPro: IPR001563 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. Proteolytic enzymes that exploit serine in their catalytic activity are ubiquitous, being found in viruses, bacteria and eukaryotes []. They include a wide range of peptidase activity, including exopeptidase, endopeptidase, oligopeptidase and omega-peptidase activity. Over 20 families (denoted S1 - S66) of serine protease have been identified, these being grouped into clans on the basis of structural similarity and other functional evidence []. Structures are known for members of the clans and the structures indicate that some appear to be totally unrelated, suggesting different evolutionary origins for the serine peptidases []. Not withstanding their different evolutionary origins, there are similarities in the reaction mechanisms of several peptidases. Chymotrypsin, subtilisin and carboxypeptidase C have a catalytic triad of serine, aspartate and histidine in common: serine acts as a nucleophile, aspartate as an electrophile, and histidine as a base []. The geometric orientations of the catalytic residues are similar between families, despite different protein folds []. The linear arrangements of the catalytic residues commonly reflect clan relationships. For example the catalytic triad in the chymotrypsin clan (PA) is ordered HDS, but is ordered DHS in the subtilisin clan (SB) and SDH in the carboxypeptidase clan (SC) [, ]. This group of serine peptidases belong to MEROPS peptidase family S10 (clan SC). The type example is carboxypeptidase Y from Saccharomyces cerevisiae (Baker's yeast) []. All known carboxypeptidases are either metallo carboxypeptidases or serine carboxypeptidases (3.4.16.5 from EC and 3.4.16.6 from EC). The catalytic activity of the serine carboxypeptidases, like that of the trypsin family serine proteases, is provided by a charge relay system involving an aspartic acid residue hydrogen-bonded to a histidine, which is itself hydrogen-bonded to a serine []. The sequences surrounding the active site serine and histidine residues are highly conserved in all the serine carboxypeptidases.; GO: 0004185 serine-type carboxypeptidase activity, 0006508 proteolysis; PDB: 1AC5_A 1WHS_B 3SC2_B 1WHT_A 1BCR_A 1BCS_A 1GXS_A 1IVY_A 1WPX_A 1YSC_A ....
Probab=99.97 E-value=2.3e-32 Score=222.24 Aligned_cols=164 Identities=25% Similarity=0.455 Sum_probs=117.9
Q ss_pred CeEecccCCcccccchHHHHHHHhCCCCHHHHHHHHhcCCCC---ccCcccchhhhHHHHHH------hhhhhcccCCC-
Q 031045 1 MQVGNALTDDYHDYLGLFQFWWSAGLISDDTYKQLKLLCDYE---SFIHPSCTASVSQSNRL------LKRMHVVGHAS- 70 (166)
Q Consensus 1 i~IGNg~~d~~~~~~~~~~~~~~~glI~~~~~~~~~~~C~~~---~~~~~~C~~~~~~~~~~------~~~~~~~~~~~- 70 (166)
|+||||++||..|..++.+|+|+||+|++++++.+.+.|... ......|..+...+... ...++.|+...
T Consensus 174 i~IGng~~dp~~~~~s~~~~~~~~gli~~~~~~~~~~~~~~~~~~~~~~~~c~~~~~~~~~~~~~~~~~~~~n~Ydi~~~ 253 (415)
T PF00450_consen 174 IAIGNGWIDPRIQYNSYADYAYYHGLIDDQQYDDLNKACEACPQCQKAITECAAALDELSCQYAISQCNGGINPYDIRQP 253 (415)
T ss_dssp EEEESE-SBHHHHHHHHHHHHHHTTSS-HHHHHHHHHHHTTSHSSSCCHHHHHHHHHHHHHHCHHHHHHTTSETTSTTSE
T ss_pred ceecCccccccccceeecccccccCcccHHHHHHHHHHhhccccccchhhHHHHHHHhhhhhcccccccCCcceeeeecc
Confidence 689999999999999999999999999999999999988643 12234565554433221 12222222110
Q ss_pred ------------CCCCCCCcchhhhccCchHHHhhhCCCCCccccCccccc--------------ccHHHHHHHHhcCce
Q 031045 71 ------------EKYDPCTEKHSVVYFNQPEVQKALHVIPAVALAKWETCR--------------IVLDIYHELIHSGLR 124 (166)
Q Consensus 71 ------------~~~~~c~~~~~~~ylN~~~V~~aLhv~~~~~~~~w~~c~--------------~~~~~~~~ll~~~ir 124 (166)
...+++..+.+..|||+++||+||||+... ...|..|+ ++.+.++.||++++|
T Consensus 254 ~~~~~~~~~~~~~~~~~~~~~~~~~yln~~~Vr~aL~v~~~~-~~~w~~~~~~V~~~~~~~d~~~~~~~~l~~lL~~~ir 332 (415)
T PF00450_consen 254 CYNPSRSSYDNSPSNDPPDDDYLEAYLNRPDVREALHVPVDS-NVNWQSCNDAVNFNWLYDDFMPSSIPDLPELLDNGIR 332 (415)
T ss_dssp ETT-SHCTTCCCCTTTTTCHHHHHHHHTSHHHHHHTT-STTT-SSS--SB-HHHHHHCCTCCC-SBCHHHHHHHHHTT-E
T ss_pred ccccccccccccccccccchhhHHHHhccHHHHHhhCCCccc-CCcccccCcccccccccccccccchhhhhhhhhccce
Confidence 001122236789999999999999997211 25899998 778999999999999
Q ss_pred EEEEecCCCcccChHHHHHHHHHcCCCCccccccccc--CCcc
Q 031045 125 IWMFSGDTDAVIPVTSARYSIDALNLPTVKPWRAWYD--EGQV 165 (166)
Q Consensus 125 vLiY~Gd~D~i~n~~gt~~~i~~L~w~~~~~~~~W~~--~~qv 165 (166)
||||+||+|++||+.||++|+++|+|+++++|++|.. ++++
T Consensus 333 VLiy~Gd~D~i~n~~Gt~~~i~~L~w~~~~~f~~~~~~~~~~~ 375 (415)
T PF00450_consen 333 VLIYNGDLDLICNFLGTERWIDNLNWSGKDGFRQWPRKVNGQV 375 (415)
T ss_dssp EEEEEETT-SSS-HHHHHHHHHCTECTEEEEEEEEEEETTCSE
T ss_pred eEEeccCCCEEEEeccchhhhhccccCcccccccccccccccc
Confidence 9999999999999999999999999999999999976 5555
No 7
>KOG1283 consensus Serine carboxypeptidases [Posttranslational modification, protein turnover, chaperones]
Probab=99.65 E-value=5.9e-17 Score=125.24 Aligned_cols=153 Identities=13% Similarity=0.132 Sum_probs=103.4
Q ss_pred CeEecccCCcccccchHHHHHHHhCCCCHHHHHHHHh---cCC-CCcc----CcccchhhhHHH----------------
Q 031045 1 MQVGNALTDDYHDYLGLFQFWWSAGLISDDTYKQLKL---LCD-YESF----IHPSCTASVSQS---------------- 56 (166)
Q Consensus 1 i~IGNg~~d~~~~~~~~~~~~~~~glI~~~~~~~~~~---~C~-~~~~----~~~~C~~~~~~~---------------- 56 (166)
+++|+.||+|..-..|+.+|++..+++++...+...+ .|+ ..+. ....|....+..
T Consensus 159 VaLGDSWISP~D~V~SWGP~L~~~S~LDD~GLds~ns~A~k~~~~v~~g~~~~AT~~Wg~~e~li~~~sn~VdfYNil~~ 238 (414)
T KOG1283|consen 159 VALGDSWISPEDFVFSWGPLLKHVSRLDDNGLDSSNSGAEKGKGGVDGGKWGGATGGWGGGENLISRESNGVDFYNILTK 238 (414)
T ss_pred EEccCcccChhHhhhcchHHHHhhhhhcccCccchhhhHHhhcccccCCccccccccccCcCcceeecccCcceeeeecc
Confidence 5889999999999999999999999999998877654 243 1110 001111000000
Q ss_pred -------H--HHhhhhhccc-CCCCCC-CCCCcchhhhccCchHHHhhhCCCCCccccCccccc-------------ccH
Q 031045 57 -------N--RLLKRMHVVG-HASEKY-DPCTEKHSVVYFNQPEVQKALHVIPAVALAKWETCR-------------IVL 112 (166)
Q Consensus 57 -------~--~~~~~~~~~~-~~~~~~-~~c~~~~~~~ylN~~~V~~aLhv~~~~~~~~w~~c~-------------~~~ 112 (166)
. ....+...+. +..... .+-..+.++++||-| ||++|++.+.. ..|..-+ +++
T Consensus 239 t~~d~~~~ss~~~~~~~~~~rrl~~~~~~~~~~D~L~~lM~g~-vrkkLgIip~~--~~wGgqsg~vFt~lq~dFMKPvi 315 (414)
T KOG1283|consen 239 TLGDQYSLSSRAAMTPEEVMRRLLVRFVGDEDRDKLSDLMNGP-VRKKLGIIPGG--VKWGGQSGDVFTKLQGDFMKPVI 315 (414)
T ss_pred CCCcchhhhhhhhcchHHHHHHHHhccCcchhHHHHHHHhccc-ccccccccCCC--CcccCcCCchHHHhhhhhcccHH
Confidence 0 0000000000 000000 011125689999985 99999997654 5787666 666
Q ss_pred HHHHHHHhcCceEEEEecCCCcccChHHHHHHHHHcCCCCcccc
Q 031045 113 DIYHELIHSGLRIWMFSGDTDAVIPVTSARYSIDALNLPTVKPW 156 (166)
Q Consensus 113 ~~~~~ll~~~irvLiY~Gd~D~i~n~~gt~~~i~~L~w~~~~~~ 156 (166)
..+.+||++|++|-||||++|+||++.|+++|+++|.|++...+
T Consensus 316 ~~VdeLL~~Gv~V~VynG~lDlIc~T~G~~AWv~~l~w~~~p~f 359 (414)
T KOG1283|consen 316 SKVDELLNNGVNVTVYNGQLDLICATMGTEAWVEKLEWSAKPSF 359 (414)
T ss_pred HHHHHHHhCCceEEEEecccchhhcccchhhhhhheecCCCCcc
Confidence 77889999999999999999999999999999999999998755
No 8
>COG2939 Carboxypeptidase C (cathepsin A) [Amino acid transport and metabolism]
Probab=99.21 E-value=1.4e-11 Score=100.92 Aligned_cols=152 Identities=16% Similarity=0.231 Sum_probs=105.9
Q ss_pred CeEecc-cCCcccccchHHHHHHH----hCCCCHHHHHHHHhcCCCCc-----------cCcccchhhhHHHHHHhhh--
Q 031045 1 MQVGNA-LTDDYHDYLGLFQFWWS----AGLISDDTYKQLKLLCDYES-----------FIHPSCTASVSQSNRLLKR-- 62 (166)
Q Consensus 1 i~IGNg-~~d~~~~~~~~~~~~~~----~glI~~~~~~~~~~~C~~~~-----------~~~~~C~~~~~~~~~~~~~-- 62 (166)
++|||| +|||..|+..|..|+.. ++..+.+.++++.+.|+... .....|..+...+......
T Consensus 235 vligng~~t~Pl~~~~~y~~~a~~~~~~~~~l~~e~~~~~~~~~~~d~~~~l~~g~~~~~~~~~c~~~~~~~~~~~~~~~ 314 (498)
T COG2939 235 VLIGNGLWTDPLTQYLTYEPIAAEKGPYDGVLSSEECTKAEKYCAGDYCLALMKGCYDSGSLQPCENASAYLTGLMREYV 314 (498)
T ss_pred eeecCCcccChhHHHHHhhhhHhhcCCCCCcCcHHHHHHHHHHhhhhhHhhhccCCCCchhhhHHHHHHHHHHhcchhhh
Confidence 589999 99999999999999974 56777888888888776311 1123455444433222111
Q ss_pred -------hhcccCCC-CCC----CCCCc--chhhhccCchHHHhhhCCCCCccccCccccc----------------ccH
Q 031045 63 -------MHVVGHAS-EKY----DPCTE--KHSVVYFNQPEVQKALHVIPAVALAKWETCR----------------IVL 112 (166)
Q Consensus 63 -------~~~~~~~~-~~~----~~c~~--~~~~~ylN~~~V~~aLhv~~~~~~~~w~~c~----------------~~~ 112 (166)
.+.|.... ..+ .-|++ ....+|++-..++++++... ..|..|. ...
T Consensus 315 ~r~~~~~~n~y~~r~~~~d~g~~~~~y~~~~~~ld~~~~~~~~~~~~~~~----d~~~~c~t~a~~~f~~~~~~~~~~~~ 390 (498)
T COG2939 315 GRAGGRLLNVYDIREECRDPGLGGSCYDTLSTSLDYFNFDPEQEVNDPEV----DNISGCTTDAMTDFLTFTGGWAKPSR 390 (498)
T ss_pred ccccccccccccchhhcCCCCcccccccceeeccccccccchhccccccc----cchhccchHHHHhhhhhcCCcccccH
Confidence 11121110 000 12443 45778999888899987654 3799999 233
Q ss_pred HHHHHHHhcCceEEEEecCCCcccChHHHHHHHHHcCCCCcccc
Q 031045 113 DIYHELIHSGLRIWMFSGDTDAVIPVTSARYSIDALNLPTVKPW 156 (166)
Q Consensus 113 ~~~~~ll~~~irvLiY~Gd~D~i~n~~gt~~~i~~L~w~~~~~~ 156 (166)
..+..++.+++.+++|.||.|.+||+.|+++|..+|+|.+...|
T Consensus 391 ~~~~~~lv~~~~~~~~~gd~d~icn~~~~~a~~~~Lkw~~~~g~ 434 (498)
T COG2939 391 YLVLNLLVNNVWILLYAGDKDFICNLRGNMALDPKLKWLGASGY 434 (498)
T ss_pred HHHhhhhhcCCceeeeecCchhHhhhhhhcccCCcceEeeecch
Confidence 45566777899999999999999999999999999999998754
No 9
>PF00681 Plectin: Plectin repeat; InterPro: IPR001101 Plectin may have a role in cross-linking intermediate filaments, in inter-linking intermediate filaments with microtubules and microfilaments and in anchoring intermediate filaments to the plasma and nuclear membranes. Plectin is recruited into hemidesmosomes, multiprotein complexes that facilitate adhesion of epithelia to the basement membrane, thereby providing linkage between the intracellular keratin filaments to the laminins of the extracellular matrix. Plectin binds to hemidesmosomes through association of its actin-binding domain with the first pair of fibronectin type III repeats and a small part of the connecting segment of the integrin-beta4 subunit, the latter (integrin-alpha6,beta4) acting as a receptor for the extracellular matrix component laminin-5. The plectin repeat is also seen in the cell adhesion junction plaque proteins, desmoplakin, envoplakin, and bullous pemphigoid antigen. The domains in plakins show considerable sequence homology. The N terminus consists of a plakin domain containing a number of subdomains with high alpha-helical content, while the central coiled-coil domain is composed of heptad repeats involved in the dimerisation of plakin, and the C terminus contains one or more homologous repeat sequences referred to plectin repeats []. This entry represents the plectin repeats found in the C terminus of plakin proteins.; GO: 0005856 cytoskeleton; PDB: 1LM7_A 1LM5_A.
Probab=87.12 E-value=0.55 Score=26.11 Aligned_cols=32 Identities=22% Similarity=0.077 Sum_probs=26.3
Q ss_pred ccCCcccccchHHHHHHHhCCCCHHHHHHHHh
Q 031045 6 ALTDDYHDYLGLFQFWWSAGLISDDTYKQLKL 37 (166)
Q Consensus 6 g~~d~~~~~~~~~~~~~~~glI~~~~~~~~~~ 37 (166)
|.+||..-..--.+=|+..|||+.+.+..+.+
T Consensus 12 Giidp~tg~~lsv~~A~~~glId~~~~~~L~e 43 (45)
T PF00681_consen 12 GIIDPETGERLSVEEAIQRGLIDSDTAQKLLE 43 (45)
T ss_dssp SEEETTTTEEEEHHHHHHTTSS-HHHHHHHHH
T ss_pred eEEeCCCCeEEcHHHHHHCCCcCHHHHHHHHc
Confidence 88899887777778899999999999888764
No 10
>PF08386 Abhydrolase_4: TAP-like protein; InterPro: IPR013595 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. Proteolytic enzymes that exploit serine in their catalytic activity are ubiquitous, being found in viruses, bacteria and eukaryotes []. They include a wide range of peptidase activity, including exopeptidase, endopeptidase, oligopeptidase and omega-peptidase activity. Over 20 families (denoted S1 - S66) of serine protease have been identified, these being grouped into clans on the basis of structural similarity and other functional evidence []. Structures are known for members of the clans and the structures indicate that some appear to be totally unrelated, suggesting different evolutionary origins for the serine peptidases []. Not withstanding their different evolutionary origins, there are similarities in the reaction mechanisms of several peptidases. Chymotrypsin, subtilisin and carboxypeptidase C have a catalytic triad of serine, aspartate and histidine in common: serine acts as a nucleophile, aspartate as an electrophile, and histidine as a base []. The geometric orientations of the catalytic residues are similar between families, despite different protein folds []. The linear arrangements of the catalytic residues commonly reflect clan relationships. For example the catalytic triad in the chymotrypsin clan (PA) is ordered HDS, but is ordered DHS in the subtilisin clan (SB) and SDH in the carboxypeptidase clan (SC) [, ]. This entry represents a C-terminal domain associated with putative hydrolases and bacterial peptidases that belong to MEROPS peptidase family S33 (clan SC). They are related to a tripeptidyl aminopeptidase from Streptomyces lividans (Q54410 from SWISSPROT). A member of this family (Q6E3K7 from SWISSPROT) is thought to be involved in the C-terminal processing of propionicin F, a bacteriocidin characterised from Propionibacterium freudenreichii []. ; GO: 0008233 peptidase activity
Probab=77.23 E-value=3.5 Score=27.04 Aligned_cols=29 Identities=28% Similarity=0.300 Sum_probs=26.6
Q ss_pred CceEEEEecCCCcccChHHHHHHHHHcCC
Q 031045 122 GLRIWMFSGDTDAVIPVTSARYSIDALNL 150 (166)
Q Consensus 122 ~irvLiY~Gd~D~i~n~~gt~~~i~~L~w 150 (166)
..+||+.+|..|.+.|+.+.+...+.|.=
T Consensus 34 ~~piL~l~~~~Dp~TP~~~a~~~~~~l~~ 62 (103)
T PF08386_consen 34 APPILVLGGTHDPVTPYEGARAMAARLPG 62 (103)
T ss_pred CCCEEEEecCcCCCCcHHHHHHHHHHCCC
Confidence 38999999999999999999999998864
No 11
>PF00326 Peptidase_S9: Prolyl oligopeptidase family This family belongs to family S9 of the peptidase classification.; InterPro: IPR001375 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. Proteolytic enzymes that exploit serine in their catalytic activity are ubiquitous, being found in viruses, bacteria and eukaryotes []. They include a wide range of peptidase activity, including exopeptidase, endopeptidase, oligopeptidase and omega-peptidase activity. Over 20 families (denoted S1 - S66) of serine protease have been identified, these being grouped into clans on the basis of structural similarity and other functional evidence []. Structures are known for members of the clans and the structures indicate that some appear to be totally unrelated, suggesting different evolutionary origins for the serine peptidases []. Not withstanding their different evolutionary origins, there are similarities in the reaction mechanisms of several peptidases. Chymotrypsin, subtilisin and carboxypeptidase C have a catalytic triad of serine, aspartate and histidine in common: serine acts as a nucleophile, aspartate as an electrophile, and histidine as a base []. The geometric orientations of the catalytic residues are similar between families, despite different protein folds []. The linear arrangements of the catalytic residues commonly reflect clan relationships. For example the catalytic triad in the chymotrypsin clan (PA) is ordered HDS, but is ordered DHS in the subtilisin clan (SB) and SDH in the carboxypeptidase clan (SC) [, ]. This domain covers the active site serine of the serine peptidases belonging to MEROPS peptidase family S9 (prolyl oligopeptidase family, clan SC). The protein fold of the peptidase domain for members of this family resembles that of serine carboxypeptidase D, the type example of clan SC. Examples of protein families containing this domain are: Prolyl endopeptidase (3.4.21.26 from EC) (PE) (also called post-proline cleaving enzyme). PE is an enzyme that cleaves peptide bonds on the C-terminal side of prolyl residues. The sequence of PE has been obtained from a mammalian species (pig) and from bacteria (Flavobacterium meningosepticum and Aeromonas hydrophila); there is a high degree of sequence conservation between these sequences. Escherichia coli protease II (3.4.21.83 from EC) (oligopeptidase B) (gene prtB) which cleaves peptide bonds on the C-terminal side of lysyl and argininyl residues. Dipeptidyl peptidase IV (3.4.14.5 from EC) (DPP IV). DPP IV is an enzyme that removes N-terminal dipeptides sequentially from polypeptides having unsubstituted N-termini provided that the penultimate residue is proline. Saccharomyces cerevisiae (Baker's yeast) vacuolar dipeptidyl aminopeptidases A and B (DPAP A and DPAP B), encoded by the STE13 and DAP2 genes respectively. DPAP A is responsible for the proteolytic maturation of the alpha-factor precursor. Acylamino-acid-releasing enzyme (3.4.19.1 from EC) (acyl-peptide hydrolase). This enzyme catalyses the hydrolysis of the amino-terminal peptide bond of an N-acetylated protein to generate a N-acetylated amino acid and a protein with a free amino-terminus. These proteins belong to MEROPS peptidase families S9A, S9B and S9C.; GO: 0008236 serine-type peptidase activity, 0006508 proteolysis; PDB: 2AJ8_D 1ORV_D 2AJB_C 2BUC_D 1ORW_D 2AJC_D 2AJD_C 2BUA_A 2HU8_B 3O4J_B ....
Probab=73.79 E-value=4.1 Score=29.88 Aligned_cols=31 Identities=16% Similarity=0.264 Sum_probs=27.6
Q ss_pred cCceEEEEecCCCcccChHHHHHHHHHcCCC
Q 031045 121 SGLRIWMFSGDTDAVIPVTSARYSIDALNLP 151 (166)
Q Consensus 121 ~~irvLiY~Gd~D~i~n~~gt~~~i~~L~w~ 151 (166)
...+|||..|+.|.+||..-+..+.++|.-.
T Consensus 143 ~~~P~li~hG~~D~~Vp~~~s~~~~~~L~~~ 173 (213)
T PF00326_consen 143 IKPPVLIIHGENDPRVPPSQSLRLYNALRKA 173 (213)
T ss_dssp GGSEEEEEEETTBSSSTTHHHHHHHHHHHHT
T ss_pred CCCCEEEEccCCCCccCHHHHHHHHHHHHhc
Confidence 4689999999999999999999999888633
No 12
>PF03583 LIP: Secretory lipase ; InterPro: IPR005152 This entry represents a family of secreted lipases. Family members include the LIP lipases from Candida albicans, which are expressed and secreted during the infection cycle of these pathogens [].; GO: 0004806 triglyceride lipase activity, 0016042 lipid catabolic process
Probab=73.12 E-value=4 Score=32.06 Aligned_cols=31 Identities=13% Similarity=0.315 Sum_probs=28.0
Q ss_pred CceEEEEecCCCcccChHHHHHHHHHcCCCC
Q 031045 122 GLRIWMFSGDTDAVIPVTSARYSIDALNLPT 152 (166)
Q Consensus 122 ~irvLiY~Gd~D~i~n~~gt~~~i~~L~w~~ 152 (166)
+.+|+||.|..|-++|+..+...++++.=.|
T Consensus 219 ~~Pv~i~~g~~D~vvP~~~~~~l~~~~c~~G 249 (290)
T PF03583_consen 219 TVPVLIYQGTADEVVPPADTDALVAKWCAAG 249 (290)
T ss_pred CCCEEEEecCCCCCCChHHHHHHHHHHHHcC
Confidence 4899999999999999999999999986555
No 13
>PF07849 DUF1641: Protein of unknown function (DUF1641); InterPro: IPR012440 Archaeal and bacterial hypothetical proteins are found in this family, with the region in question being approximately 40 residues long.
Probab=69.18 E-value=1.7 Score=23.88 Aligned_cols=16 Identities=25% Similarity=0.439 Sum_probs=13.4
Q ss_pred hhhccCchHHHhhhCC
Q 031045 81 SVVYFNQPEVQKALHV 96 (166)
Q Consensus 81 ~~~ylN~~~V~~aLhv 96 (166)
+-.-|++||||.+|++
T Consensus 16 l~~~l~DpdvqrgL~~ 31 (42)
T PF07849_consen 16 LLRALRDPDVQRGLGF 31 (42)
T ss_pred HHHHHcCHHHHHHHHH
Confidence 4566999999999985
No 14
>PF09851 SHOCT: Short C-terminal domain; InterPro: IPR018649 This family of hypothetical prokaryotic proteins has no known function.
Probab=68.52 E-value=6.4 Score=19.93 Aligned_cols=19 Identities=32% Similarity=0.492 Sum_probs=15.4
Q ss_pred HHHHHhCCCCHHHHHHHHh
Q 031045 19 QFWWSAGLISDDTYKQLKL 37 (166)
Q Consensus 19 ~~~~~~glI~~~~~~~~~~ 37 (166)
.-+|..|+|+++.|+..++
T Consensus 9 ~~l~~~G~IseeEy~~~k~ 27 (31)
T PF09851_consen 9 KELYDKGEISEEEYEQKKA 27 (31)
T ss_pred HHHHHcCCCCHHHHHHHHH
Confidence 3468899999999987654
No 15
>PF07519 Tannase: Tannase and feruloyl esterase; InterPro: IPR011118 This family includes fungal tannase [] and feruloyl esterase [, ]. It also includes several bacterial homologues of unknown function.
Probab=66.75 E-value=5.9 Score=33.49 Aligned_cols=38 Identities=13% Similarity=0.170 Sum_probs=32.8
Q ss_pred cHHHHHHHHhcCceEEEEecCCCcccChHHHHHHHHHc
Q 031045 111 VLDIYHELIHSGLRIWMFSGDTDAVIPVTSARYSIDAL 148 (166)
Q Consensus 111 ~~~~~~~ll~~~irvLiY~Gd~D~i~n~~gt~~~i~~L 148 (166)
.-|-+..+.++|=|+|+|.|-.|.+++..+|.++-+++
T Consensus 342 ~~pDLsaF~~~GGKLI~~HG~aD~~I~p~~ti~YY~~V 379 (474)
T PF07519_consen 342 TDPDLSAFRARGGKLILYHGWADPLIPPQGTIDYYERV 379 (474)
T ss_pred CCcCHHHHHhcCCeEEEEecCCCCccCCCcHHHHHHHH
Confidence 34667777788999999999999999999999987766
No 16
>PF12695 Abhydrolase_5: Alpha/beta hydrolase family; PDB: 3D0K_B 2I3D_B 3DOH_B 3DOI_B 3PFB_A 3S2Z_B 3PFC_A 3QM1_A 3PF8_B 3PF9_A ....
Probab=63.83 E-value=10 Score=25.35 Aligned_cols=34 Identities=21% Similarity=0.440 Sum_probs=28.1
Q ss_pred HHHHhcCceEEEEecCCCcccChHHHHHHHHHcC
Q 031045 116 HELIHSGLRIWMFSGDTDAVIPVTSARYSIDALN 149 (166)
Q Consensus 116 ~~ll~~~irvLiY~Gd~D~i~n~~gt~~~i~~L~ 149 (166)
+.+-...++|++..|+.|.+++....+...+++.
T Consensus 98 ~~~~~~~~pv~~i~g~~D~~~~~~~~~~~~~~~~ 131 (145)
T PF12695_consen 98 EDLAKIRIPVLFIHGENDPLVPPEQVRRLYEALP 131 (145)
T ss_dssp HHHTTTTSEEEEEEETT-SSSHHHHHHHHHHHHC
T ss_pred hhhhccCCcEEEEEECCCCcCCHHHHHHHHHHcC
Confidence 3444567899999999999999999999888887
No 17
>PRK13604 luxD acyl transferase; Provisional
Probab=61.54 E-value=14 Score=29.40 Aligned_cols=28 Identities=11% Similarity=0.271 Sum_probs=25.9
Q ss_pred CceEEEEecCCCcccChHHHHHHHHHcC
Q 031045 122 GLRIWMFSGDTDAVIPVTSARYSIDALN 149 (166)
Q Consensus 122 ~irvLiY~Gd~D~i~n~~gt~~~i~~L~ 149 (166)
..+||+..|+.|..||..+.+...++++
T Consensus 202 ~~PvLiIHG~~D~lVp~~~s~~l~e~~~ 229 (307)
T PRK13604 202 DIPFIAFTANNDSWVKQSEVIDLLDSIR 229 (307)
T ss_pred CCCEEEEEcCCCCccCHHHHHHHHHHhc
Confidence 5899999999999999999999998874
No 18
>PLN02298 hydrolase, alpha/beta fold family protein
Probab=59.89 E-value=13 Score=29.18 Aligned_cols=30 Identities=13% Similarity=0.193 Sum_probs=26.6
Q ss_pred CceEEEEecCCCcccChHHHHHHHHHcCCC
Q 031045 122 GLRIWMFSGDTDAVIPVTSARYSIDALNLP 151 (166)
Q Consensus 122 ~irvLiY~Gd~D~i~n~~gt~~~i~~L~w~ 151 (166)
.+++||..|+.|.+||....+.+.+++..+
T Consensus 251 ~~PvLii~G~~D~ivp~~~~~~l~~~i~~~ 280 (330)
T PLN02298 251 SIPFIVLHGSADVVTDPDVSRALYEEAKSE 280 (330)
T ss_pred CCCEEEEecCCCCCCCHHHHHHHHHHhccC
Confidence 589999999999999999999988887544
No 19
>COG0400 Predicted esterase [General function prediction only]
Probab=59.29 E-value=11 Score=28.24 Aligned_cols=39 Identities=23% Similarity=0.355 Sum_probs=30.6
Q ss_pred cCceEEEEecCCCcccChHHHHHHHHHcCCCCccccccc
Q 031045 121 SGLRIWMFSGDTDAVIPVTSARYSIDALNLPTVKPWRAW 159 (166)
Q Consensus 121 ~~irvLiY~Gd~D~i~n~~gt~~~i~~L~w~~~~~~~~W 159 (166)
++.+||+-.|..|.+||..-+++..+.|.=.+.+-+..|
T Consensus 145 ~~~pill~hG~~Dpvvp~~~~~~l~~~l~~~g~~v~~~~ 183 (207)
T COG0400 145 AGTPILLSHGTEDPVVPLALAEALAEYLTASGADVEVRW 183 (207)
T ss_pred CCCeEEEeccCcCCccCHHHHHHHHHHHHHcCCCEEEEE
Confidence 579999999999999999999998877754554433333
No 20
>PF05414 DUF1717: Viral domain of unknown function (DUF1717); InterPro: IPR008745 The domain is found towards the N terminus of the polyprotein of Apple stem grooving virus (strain P-209) (ASGV), Citrus tatter leaf virus and from Apple stem grooving virus (strain Korea) (ASGV) (Pear black necrotic leaf spot virus). Its function is unknown [, ].
Probab=58.82 E-value=6.8 Score=24.93 Aligned_cols=11 Identities=36% Similarity=0.972 Sum_probs=10.1
Q ss_pred CceEEEEecCC
Q 031045 122 GLRIWMFSGDT 132 (166)
Q Consensus 122 ~irvLiY~Gd~ 132 (166)
|+||+||-||.
T Consensus 40 gyrVhiyyGdS 50 (101)
T PF05414_consen 40 GYRVHIYYGDS 50 (101)
T ss_pred ccEEEEEecce
Confidence 89999999975
No 21
>TIGR01675 plant-AP plant acid phosphatase. This model explicitly excludes the VSPs which lack the nucleophilc aspartate. The possibility exists, however, that some members of this family may, while containing all of the conserved HAD-superfamily catalytic residues, lack activity and have a function related to the function of the VSPs rather than the acid phosphatases.
Probab=56.60 E-value=26 Score=26.72 Aligned_cols=41 Identities=17% Similarity=0.372 Sum_probs=33.4
Q ss_pred ccHHHHHHHHhcCceEEEEecCCCcccChHHHHHHHHHcCCCC
Q 031045 110 IVLDIYHELIHSGLRIWMFSGDTDAVIPVTSARYSIDALNLPT 152 (166)
Q Consensus 110 ~~~~~~~~ll~~~irvLiY~Gd~D~i~n~~gt~~~i~~L~w~~ 152 (166)
.++.+++.|.+.|++|.+.+|-.... -..|.+|+.+.++++
T Consensus 124 ~al~l~~~l~~~G~~Vf~lTGR~e~~--r~~T~~nL~~~G~~~ 164 (229)
T TIGR01675 124 EGLKLYQKIIELGIKIFLLSGRWEEL--RNATLDNLINAGFTG 164 (229)
T ss_pred HHHHHHHHHHHCCCEEEEEcCCChHH--HHHHHHHHHHcCCCC
Confidence 66678888989999999999986532 455889999998875
No 22
>TIGR01680 Veg_Stor_Prot vegetative storage protein. The proteins represented by this model are close relatives of the plant acid phosphatases (TIGR01675), are limited to members of the Phaseoleae including Glycine max (soybean) and Phaseolus vulgaris (kidney bean). These proteins are highly expressed in the leaves of repeatedly depodded plants. VSP differs most strinkingly from the acid phosphatases in the lack of the conserved nucleophilic aspartate residue in the N-terminus, thus, they should be inactive as phosphatases. This issue was confused by the publication in 1992 of an article claiming activity for the Glycine max VSP. In 1994 this assertion was refuted by the separation of the activity from the VSP.
Probab=56.09 E-value=29 Score=27.27 Aligned_cols=41 Identities=20% Similarity=0.311 Sum_probs=34.3
Q ss_pred ccHHHHHHHHhcCceEEEEecCCCcccChHHHHHHHHHcCCCC
Q 031045 110 IVLDIYHELIHSGLRIWMFSGDTDAVIPVTSARYSIDALNLPT 152 (166)
Q Consensus 110 ~~~~~~~~ll~~~irvLiY~Gd~D~i~n~~gt~~~i~~L~w~~ 152 (166)
.++.+++.+.+.|++|.+.+|-.+.. -..|.+|+++.++++
T Consensus 149 ~al~ly~~l~~~G~kIf~VSgR~e~~--r~aT~~NL~kaGy~~ 189 (275)
T TIGR01680 149 ETLKNYNKLVSLGFKIIFLSGRLKDK--QAVTEANLKKAGYHT 189 (275)
T ss_pred HHHHHHHHHHHCCCEEEEEeCCchhH--HHHHHHHHHHcCCCC
Confidence 67789999999999999999997654 345999999998864
No 23
>smart00250 PLEC Plectin repeat.
Probab=55.56 E-value=6.2 Score=20.86 Aligned_cols=26 Identities=19% Similarity=0.078 Sum_probs=19.1
Q ss_pred ccCCcccccchHHHHHHHhCCCCHHH
Q 031045 6 ALTDDYHDYLGLFQFWWSAGLISDDT 31 (166)
Q Consensus 6 g~~d~~~~~~~~~~~~~~~glI~~~~ 31 (166)
|.+||.....-...=|...|||+.+.
T Consensus 12 Giidp~t~~~lsv~eA~~~glid~~~ 37 (38)
T smart00250 12 GIIDPETGQKLSVEEALRRGLIDPET 37 (38)
T ss_pred EEEcCCCCCCcCHHHHHHcCCCCccc
Confidence 77888766665666688889988653
No 24
>PHA02857 monoglyceride lipase; Provisional
Probab=54.65 E-value=21 Score=27.00 Aligned_cols=29 Identities=21% Similarity=0.334 Sum_probs=25.9
Q ss_pred cCceEEEEecCCCcccChHHHHHHHHHcC
Q 031045 121 SGLRIWMFSGDTDAVIPVTSARYSIDALN 149 (166)
Q Consensus 121 ~~irvLiY~Gd~D~i~n~~gt~~~i~~L~ 149 (166)
-.++|||..|+.|.+||....+.+.+.+.
T Consensus 208 i~~Pvliv~G~~D~i~~~~~~~~l~~~~~ 236 (276)
T PHA02857 208 IKTPILILQGTNNEISDVSGAYYFMQHAN 236 (276)
T ss_pred CCCCEEEEecCCCCcCChHHHHHHHHHcc
Confidence 35899999999999999999999888773
No 25
>PF10503 Esterase_phd: Esterase PHB depolymerase
Probab=54.50 E-value=13 Score=28.04 Aligned_cols=26 Identities=19% Similarity=0.317 Sum_probs=21.1
Q ss_pred CceEEEEecCCCcccChHHHHHHHHH
Q 031045 122 GLRIWMFSGDTDAVIPVTSARYSIDA 147 (166)
Q Consensus 122 ~irvLiY~Gd~D~i~n~~gt~~~i~~ 147 (166)
+++++|+.|+.|..|+....++-++.
T Consensus 169 ~~P~~v~hG~~D~tV~~~n~~~~~~q 194 (220)
T PF10503_consen 169 GYPRIVFHGTADTTVNPQNADQLVAQ 194 (220)
T ss_pred CCCEEEEecCCCCccCcchHHHHHHH
Confidence 68999999999999988876664443
No 26
>TIGR01840 esterase_phb esterase, PHB depolymerase family. This model describes a subfamily among lipases of the ab-hydrolase family. This subfamily includes bacterial depolymerases for poly(3-hydroxybutyrate) (PHB) and related polyhydroxyalkanoates (PHA), as well as acetyl xylan esterases, feruloyl esterases, and others from fungi.
Probab=53.37 E-value=14 Score=27.15 Aligned_cols=27 Identities=22% Similarity=0.141 Sum_probs=23.2
Q ss_pred ceEEEEecCCCcccChHHHHHHHHHcC
Q 031045 123 LRIWMFSGDTDAVIPVTSARYSIDALN 149 (166)
Q Consensus 123 irvLiY~Gd~D~i~n~~gt~~~i~~L~ 149 (166)
-+++|.+|..|.+||....+...+.|.
T Consensus 169 p~~~i~hG~~D~vVp~~~~~~~~~~l~ 195 (212)
T TIGR01840 169 PIMSVVHGDADYTVLPGNADEIRDAML 195 (212)
T ss_pred CeEEEEEcCCCceeCcchHHHHHHHHH
Confidence 457899999999999999998887774
No 27
>PF05068 MtlR: Mannitol repressor; InterPro: IPR007761 The mannitol operon of Escherichia coli, encoding the mannitol-specific enzyme II of the phosphotransferase system (MtlA) and mannitol phosphate dehydrogenase (MtlD) contains an additional downstream open reading frame which encodes the mannitol repressor (MtlR).; PDB: 3C8G_C 3BRJ_D.
Probab=50.77 E-value=19 Score=26.20 Aligned_cols=28 Identities=21% Similarity=0.501 Sum_probs=21.9
Q ss_pred cccccchHHHHHHHhCCCCHHHHHHHHh
Q 031045 10 DYHDYLGLFQFWWSAGLISDDTYKQLKL 37 (166)
Q Consensus 10 ~~~~~~~~~~~~~~~glI~~~~~~~~~~ 37 (166)
|..+......-+|+.|+|++..|+.+..
T Consensus 62 PL~~~svRlKL~y~LG~Is~~~y~Die~ 89 (170)
T PF05068_consen 62 PLGTFSVRLKLLYALGLISKEEYEDIEL 89 (170)
T ss_dssp TTSSHHHHHHHHHHTT-S-HHHHHHHHH
T ss_pred CchhHHHHHHHHHHcCCCCHHHHhhHHH
Confidence 6667778889999999999999988755
No 28
>PF03767 Acid_phosphat_B: HAD superfamily, subfamily IIIB (Acid phosphatase); InterPro: IPR005519 This family of class B acid phosphatases also contains a number of vegetative storage proteins (VPS25). The acid phosphatase activity of VPS has been experimentally demonstrated [].; GO: 0003993 acid phosphatase activity; PDB: 3PCT_C 2I34_A 2I33_A 1Z5U_D 1Z5G_A 2AUT_C 1Z88_B 3OCV_A 3OCZ_A 3OCX_A ....
Probab=50.69 E-value=29 Score=26.23 Aligned_cols=41 Identities=12% Similarity=0.397 Sum_probs=36.0
Q ss_pred ccHHHHHHHHhcCceEEEEecCCCcccChHHHHHHHHHcCCCC
Q 031045 110 IVLDIYHELIHSGLRIWMFSGDTDAVIPVTSARYSIDALNLPT 152 (166)
Q Consensus 110 ~~~~~~~~ll~~~irvLiY~Gd~D~i~n~~gt~~~i~~L~w~~ 152 (166)
.++.+++.+.+.|++|.+.+|-.+. .-..|+.++++.+.+.
T Consensus 119 ~a~~l~~~~~~~G~~V~~iT~R~~~--~r~~T~~nL~~~G~~~ 159 (229)
T PF03767_consen 119 GALELYNYARSRGVKVFFITGRPES--QREATEKNLKKAGFPG 159 (229)
T ss_dssp THHHHHHHHHHTTEEEEEEEEEETT--CHHHHHHHHHHHTTST
T ss_pred HHHHHHHHHHHCCCeEEEEecCCch--hHHHHHHHHHHcCCCc
Confidence 6778999999999999999998888 6678999999998765
No 29
>PF02739 5_3_exonuc_N: 5'-3' exonuclease, N-terminal resolvase-like domain; InterPro: IPR020046 The N-terminal and internal 5'3'-exonuclease domains are commonly found together, and are most often associated with 5' to 3' nuclease activities. The XPG protein signatures (PDOC00658 from PROSITEDOC) are never found outside the '53EXO' domains. The latter are found in more diverse proteins [, , ]. The number of amino acids that separate the two 53EXO domains, and the presence of accompanying motifs allow the diagnosis of several protein families. In the eubacterial type A DNA-polymerases, the N-terminal and internal domains are separated by a few amino acids, usually four. The pattern DNA_POLYMERASE_A (IPR001098 from INTERPRO) is always present towards the C terminus. Several eukaryotic structure-dependent endonucleases and exonucleases have the 53EXO domains separated by 24 to 27 amino acids, and the XPG protein signatures are always present. In several proteins from herpesviridae, the two 53EXO domains are separated by 50 to 120 amino acids. These proteins are implicated in the inhibition of the expression of the host genes. Eukaryotic DNA repair proteins with 600 to 700 amino acids between the 53_EXO domains all carry the XPG protein signatures. This entry represents the N-terminal resolvase-like domain, which has a 3-layer alpha/beta/alpha core structure and contains an alpha-helical arch [, ].; GO: 0003677 DNA binding, 0008409 5'-3' exonuclease activity; PDB: 1TAQ_A 1BGX_T 1TAU_A 1XO1_B 1EXN_A 1UT8_A 1UT5_B 3H7I_A 3H8J_A 3H8S_A ....
Probab=49.04 E-value=19 Score=25.92 Aligned_cols=26 Identities=23% Similarity=0.404 Sum_probs=17.7
Q ss_pred ccHHHHHHHH-hcCceEEEEecCCCcc
Q 031045 110 IVLDIYHELI-HSGLRIWMFSGDTDAV 135 (166)
Q Consensus 110 ~~~~~~~~ll-~~~irvLiY~Gd~D~i 135 (166)
+++-.+.... +.|.+|+|+|||.|+.
T Consensus 112 DvIatla~~~~~~~~~v~IvS~DkD~~ 138 (169)
T PF02739_consen 112 DVIATLAKKASEEGFEVIIVSGDKDLL 138 (169)
T ss_dssp HHHHHHHHHHHHTTCEEEEE-SSGGGG
T ss_pred HHHHHHHhhhccCCCEEEEEcCCCCHH
Confidence 5555444333 5689999999999974
No 30
>TIGR01607 PST-A Plasmodium subtelomeric family (PST-A). These genes are preferentially located in the subtelomeric regions of the chromosomes of both P. falciparum and P. yoelii.
Probab=48.42 E-value=26 Score=27.83 Aligned_cols=29 Identities=14% Similarity=0.201 Sum_probs=25.8
Q ss_pred CceEEEEecCCCcccChHHHHHHHHHcCC
Q 031045 122 GLRIWMFSGDTDAVIPVTSARYSIDALNL 150 (166)
Q Consensus 122 ~irvLiY~Gd~D~i~n~~gt~~~i~~L~w 150 (166)
.+++|+..|+.|.+++..+++.+.+++.-
T Consensus 270 ~~P~Lii~G~~D~vv~~~~~~~~~~~~~~ 298 (332)
T TIGR01607 270 DIPILFIHSKGDCVCSYEGTVSFYNKLSI 298 (332)
T ss_pred CCCEEEEEeCCCCccCHHHHHHHHHhccC
Confidence 47999999999999999999998887754
No 31
>TIGR02427 protocat_pcaD 3-oxoadipate enol-lactonase. Members of this family are 3-oxoadipate enol-lactonase. Note that the substrate is known as 3-oxoadipate enol-lactone, 2-oxo-2,3-dihydrofuran-5-acetate, 4,5-Dihydro-5-oxofuran-2-acetate, and 5-oxo-4,5-dihydrofuran-2-acetate. The enzyme the catalyzes the fourth step in the protocatechuate degradation to beta-ketoadipate and then to succinyl-CoA and acetyl-CoA. 4-hydroxybenzoate, 3-hydroxybenzoate, and vanillate all can be converted in one step to protocatechuate. This enzyme also acts in catechol degradation. In genomes that catabolize both catechol and protocatechuate, two forms of this enzyme may be found. All members of the seed alignment for this model were chosen from within protocatechuate degradation operons of at least three genes of the pathway, from genomes with the complete pathway through beta-ketoadipate.
Probab=46.94 E-value=37 Score=24.32 Aligned_cols=30 Identities=20% Similarity=0.196 Sum_probs=25.2
Q ss_pred cCceEEEEecCCCcccChHHHHHHHHHcCC
Q 031045 121 SGLRIWMFSGDTDAVIPVTSARYSIDALNL 150 (166)
Q Consensus 121 ~~irvLiY~Gd~D~i~n~~gt~~~i~~L~w 150 (166)
-..+||+..|+.|.++|....+.+.+.+..
T Consensus 192 ~~~Pvlii~g~~D~~~~~~~~~~~~~~~~~ 221 (251)
T TIGR02427 192 IAVPTLCIAGDQDGSTPPELVREIADLVPG 221 (251)
T ss_pred cCCCeEEEEeccCCcCChHHHHHHHHhCCC
Confidence 358999999999999999888887777643
No 32
>PRK10749 lysophospholipase L2; Provisional
Probab=46.43 E-value=21 Score=28.21 Aligned_cols=27 Identities=7% Similarity=0.090 Sum_probs=24.5
Q ss_pred CceEEEEecCCCcccChHHHHHHHHHc
Q 031045 122 GLRIWMFSGDTDAVIPVTSARYSIDAL 148 (166)
Q Consensus 122 ~irvLiY~Gd~D~i~n~~gt~~~i~~L 148 (166)
.+++||..|+.|.+++..+++.+.+.+
T Consensus 259 ~~P~Lii~G~~D~vv~~~~~~~~~~~l 285 (330)
T PRK10749 259 TTPLLLLQAEEERVVDNRMHDRFCEAR 285 (330)
T ss_pred CCCEEEEEeCCCeeeCHHHHHHHHHHH
Confidence 589999999999999999999887766
No 33
>cd01427 HAD_like Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others, all of which use a nucleophilic aspartate in their phosphoryl transfer reaction. All members possess a highly conserved alpha/beta core domain, and many also possess a small cap domain, the fold and function of which is variable. Members of this superfamily are sometimes referred to as belonging to the DDDD superfamily of phosphohydrolases.
Probab=45.91 E-value=60 Score=20.86 Aligned_cols=36 Identities=17% Similarity=0.242 Sum_probs=27.4
Q ss_pred ccHHHHHHHHhcCceEEEEecCCCcccChHHHHHHHHHcCC
Q 031045 110 IVLDIYHELIHSGLRIWMFSGDTDAVIPVTSARYSIDALNL 150 (166)
Q Consensus 110 ~~~~~~~~ll~~~irvLiY~Gd~D~i~n~~gt~~~i~~L~w 150 (166)
.+...++.|.++|+++.|.+|.. ....+.+++.+++
T Consensus 28 ~~~~~l~~l~~~g~~i~ivS~~~-----~~~~~~~~~~~~~ 63 (139)
T cd01427 28 GVKEALKELKEKGIKLALATNKS-----RREVLELLEELGL 63 (139)
T ss_pred CHHHHHHHHHHCCCeEEEEeCch-----HHHHHHHHHHcCC
Confidence 66778888888899999999876 3445566677765
No 34
>TIGR03611 RutD pyrimidine utilization protein D. This protein is observed in operons extremely similar to that characterized in E. coli K-12 responsible for the import and catabolism of pyrimidines, primarily uracil. This protein is a member of the hydrolase, alpha/beta fold family defined by pfam00067.
Probab=44.25 E-value=33 Score=24.93 Aligned_cols=27 Identities=19% Similarity=0.273 Sum_probs=23.7
Q ss_pred CceEEEEecCCCcccChHHHHHHHHHc
Q 031045 122 GLRIWMFSGDTDAVIPVTSARYSIDAL 148 (166)
Q Consensus 122 ~irvLiY~Gd~D~i~n~~gt~~~i~~L 148 (166)
..+||+..|+.|.+||....+.+.+.+
T Consensus 198 ~~P~l~i~g~~D~~~~~~~~~~~~~~~ 224 (257)
T TIGR03611 198 QHPVLLIANRDDMLVPYTQSLRLAAAL 224 (257)
T ss_pred CccEEEEecCcCcccCHHHHHHHHHhc
Confidence 589999999999999998888877765
No 35
>PRK11460 putative hydrolase; Provisional
Probab=43.90 E-value=29 Score=26.04 Aligned_cols=29 Identities=31% Similarity=0.382 Sum_probs=25.1
Q ss_pred cCceEEEEecCCCcccChHHHHHHHHHcC
Q 031045 121 SGLRIWMFSGDTDAVIPVTSARYSIDALN 149 (166)
Q Consensus 121 ~~irvLiY~Gd~D~i~n~~gt~~~i~~L~ 149 (166)
...+||+..|..|.++|..-.++..+.|.
T Consensus 147 ~~~pvli~hG~~D~vvp~~~~~~~~~~L~ 175 (232)
T PRK11460 147 TATTIHLIHGGEDPVIDVAHAVAAQEALI 175 (232)
T ss_pred CCCcEEEEecCCCCccCHHHHHHHHHHHH
Confidence 46899999999999999999888777663
No 36
>PLN02652 hydrolase; alpha/beta fold family protein
Probab=43.33 E-value=29 Score=28.59 Aligned_cols=28 Identities=11% Similarity=0.149 Sum_probs=25.4
Q ss_pred CceEEEEecCCCcccChHHHHHHHHHcC
Q 031045 122 GLRIWMFSGDTDAVIPVTSARYSIDALN 149 (166)
Q Consensus 122 ~irvLiY~Gd~D~i~n~~gt~~~i~~L~ 149 (166)
.+++||..|+.|.++|...++.+.+++.
T Consensus 324 ~vPvLIi~G~~D~vvp~~~a~~l~~~~~ 351 (395)
T PLN02652 324 TVPFMVLHGTADRVTDPLASQDLYNEAA 351 (395)
T ss_pred CCCEEEEEeCCCCCCCHHHHHHHHHhcC
Confidence 5899999999999999999999988763
No 37
>PLN02872 triacylglycerol lipase
Probab=42.13 E-value=33 Score=28.30 Aligned_cols=28 Identities=32% Similarity=0.527 Sum_probs=25.6
Q ss_pred CceEEEEecCCCcccChHHHHHHHHHcC
Q 031045 122 GLRIWMFSGDTDAVIPVTSARYSIDALN 149 (166)
Q Consensus 122 ~irvLiY~Gd~D~i~n~~gt~~~i~~L~ 149 (166)
.++|+||.|..|.+++....++..++|.
T Consensus 325 ~~Pv~i~~G~~D~lv~~~dv~~l~~~Lp 352 (395)
T PLN02872 325 SLPLWMGYGGTDGLADVTDVEHTLAELP 352 (395)
T ss_pred CccEEEEEcCCCCCCCHHHHHHHHHHCC
Confidence 4799999999999999999999998885
No 38
>PF09664 DUF2399: Protein of unknown function C-terminus (DUF2399); InterPro: IPR024465 This domain is found in archaeal, bacterial and eukaryotic proteins. Its function is unknown.
Probab=41.52 E-value=31 Score=24.49 Aligned_cols=24 Identities=25% Similarity=0.382 Sum_probs=18.2
Q ss_pred ccHHHHHHHHhcCceEEEEecCCCc
Q 031045 110 IVLDIYHELIHSGLRIWMFSGDTDA 134 (166)
Q Consensus 110 ~~~~~~~~ll~~~irvLiY~Gd~D~ 134 (166)
....+++.|.+.|. .+-|+||.|.
T Consensus 54 A~~~LL~~L~~~g~-~l~y~GDfDp 77 (152)
T PF09664_consen 54 AARRLLDRLAAAGA-RLYYSGDFDP 77 (152)
T ss_pred HHHHHHHHHHhCCC-EEEEecCCCH
Confidence 44567777777776 6779999996
No 39
>PF02230 Abhydrolase_2: Phospholipase/Carboxylesterase; InterPro: IPR003140 This entry represents the alpha/beta hydrolase domain found in phospholipases [], carboxylesterases [] and thioesterases.; GO: 0016787 hydrolase activity; PDB: 3U0V_A 1AUR_A 1AUO_B 1FJ2_B 3CN9_A 3CN7_A.
Probab=41.51 E-value=32 Score=25.28 Aligned_cols=27 Identities=30% Similarity=0.447 Sum_probs=21.5
Q ss_pred CceEEEEecCCCcccChHHHHHHHHHc
Q 031045 122 GLRIWMFSGDTDAVIPVTSARYSIDAL 148 (166)
Q Consensus 122 ~irvLiY~Gd~D~i~n~~gt~~~i~~L 148 (166)
+.+|++..|+.|.++|....+...+.|
T Consensus 155 ~~pi~~~hG~~D~vvp~~~~~~~~~~L 181 (216)
T PF02230_consen 155 KTPILIIHGDEDPVVPFEWAEKTAEFL 181 (216)
T ss_dssp TS-EEEEEETT-SSSTHHHHHHHHHHH
T ss_pred CCcEEEEecCCCCcccHHHHHHHHHHH
Confidence 578999999999999998877766666
No 40
>PRK10566 esterase; Provisional
Probab=41.08 E-value=28 Score=25.87 Aligned_cols=31 Identities=19% Similarity=0.258 Sum_probs=26.3
Q ss_pred CceEEEEecCCCcccChHHHHHHHHHcCCCC
Q 031045 122 GLRIWMFSGDTDAVIPVTSARYSIDALNLPT 152 (166)
Q Consensus 122 ~irvLiY~Gd~D~i~n~~gt~~~i~~L~w~~ 152 (166)
..++|+..|..|.++|...++...+.|+=.+
T Consensus 186 ~~P~Lii~G~~D~~v~~~~~~~l~~~l~~~g 216 (249)
T PRK10566 186 DRPLLLWHGLADDVVPAAESLRLQQALRERG 216 (249)
T ss_pred CCCEEEEEcCCCCcCCHHHHHHHHHHHHhcC
Confidence 3689999999999999999999888785443
No 41
>PF03172 Sp100: Sp100 domain; InterPro: IPR004865 The Sp100 and promyelocytic leukemia proteins (PML) are constituents of nuclear domains, known as nuclear dots (NDs or NBs - nuclear bodies or PML bodies), and are both covalently modified by the small ubiquitin-related protein SUMO-1. NBs play a role in autoimmunity, virus infections, and in the etiology of acute promyelocytic leukemia []. A functional nuclear localization signal and an NB-targeting region that coincides with an Sp100 homodimerization domain have been mapped. Sequences similar to the Sp100 homodimerization/ND-targeting region occur in several other proteins, which include the autoimmune regulator proteins (AIRE) and other numerous other transiently or permanently localised proteins. PML is expressed as a family of isoforms (PML I-VII) as a result of alternative splicing, most of which are found in the nucleus. Although there are many other functions of PML NBs in a wide range of cellular pathways, there is accumulating evidence that they represent preferential targets for viral infections and that PML plays a role in the mechanism of the antiviral action of interferon []. The Sp100 domain is usually found at the amino terminus of proteins that contain a SAND domain IPR000770 from INTERPRO. ; GO: 0005634 nucleus
Probab=40.94 E-value=22 Score=23.54 Aligned_cols=23 Identities=22% Similarity=0.440 Sum_probs=18.8
Q ss_pred HHHH---HhCCCCHHHHHHHHhcCCC
Q 031045 19 QFWW---SAGLISDDTYKQLKLLCDY 41 (166)
Q Consensus 19 ~~~~---~~glI~~~~~~~~~~~C~~ 41 (166)
+|+. .|++|+++.|+..++.|.-
T Consensus 26 Pfl~gLrD~~~ItE~~y~e~~e~crn 51 (103)
T PF03172_consen 26 PFLEGLRDHSFITEQMYKESQEACRN 51 (103)
T ss_pred hHHHHhhhcccccHHHHHHHHHHHhc
Confidence 4554 4899999999999999964
No 42
>PF00702 Hydrolase: haloacid dehalogenase-like hydrolase; InterPro: IPR005834 This group of hydrolase enzymes is structurally different from the alpha/beta hydrolase family (abhydrolase). This group includes L-2-haloacid dehalogenase, epoxide hydrolases and phosphatases. The structure consists of two domains. One is an inserted four helix bundle, which is the least well conserved region of the alignment, between residues 16 and 96 of HAD1_PSESP. The rest of the fold is composed of the core alpha/beta domain.; GO: 0003824 catalytic activity, 0008152 metabolic process; PDB: 1TE2_A 3NAL_A 3NAM_A 3NAN_A 3A1D_B 3J09_A 3J08_A 2B8E_C 3A1E_A 2VOY_J ....
Probab=38.80 E-value=25 Score=25.34 Aligned_cols=24 Identities=21% Similarity=0.497 Sum_probs=20.5
Q ss_pred ccHHHHHHHHhcCceEEEEecCCC
Q 031045 110 IVLDIYHELIHSGLRIWMFSGDTD 133 (166)
Q Consensus 110 ~~~~~~~~ll~~~irvLiY~Gd~D 133 (166)
.+...++.|-+.|+++.|.+||..
T Consensus 131 ~~~~~l~~L~~~Gi~~~i~TGD~~ 154 (215)
T PF00702_consen 131 GAKEALQELKEAGIKVAILTGDNE 154 (215)
T ss_dssp THHHHHHHHHHTTEEEEEEESSEH
T ss_pred hhhhhhhhhhccCcceeeeecccc
Confidence 667788888889999999999953
No 43
>PRK13840 sucrose phosphorylase; Provisional
Probab=38.12 E-value=27 Score=29.80 Aligned_cols=42 Identities=19% Similarity=0.126 Sum_probs=28.0
Q ss_pred HHHHHHHhcCceEEEEecCCCcccChHHHH--HHHHHcCCCCcccccccc
Q 031045 113 DIYHELIHSGLRIWMFSGDTDAVIPVTSAR--YSIDALNLPTVKPWRAWY 160 (166)
Q Consensus 113 ~~~~~ll~~~irvLiY~Gd~D~i~n~~gt~--~~i~~L~w~~~~~~~~W~ 160 (166)
.-+++|.+ |+||++ |+++|+.+.+ ++.+.+.-....+++.|+
T Consensus 69 eDf~~L~~-giklml-----DlV~NHtS~~h~WFqd~l~~~~~s~Y~D~f 112 (495)
T PRK13840 69 DDVKALGK-THDIMA-----DLIVNHMSAESPQFQDVLAKGEASEYWPMF 112 (495)
T ss_pred HHHHHHHh-CCeEEE-----EECCCcCCCCcHHHHHHHHhCCCCCccCeE
Confidence 45677775 899997 9999999854 344444444445565555
No 44
>TIGR02679 conserved hypothetical protein TIGR02679. Members of this protein belong to a conserved gene four-gene neighborhood found sporadically in a phylogenetically broad range of bacteria: Nocardia farcinica, Symbiobacterium thermophilum, and Streptomyces avermitilis (Actinobacteria), Geobacillus kaustophilus (Firmicutes), Azoarcus sp. EbN1 and Ralstonia solanacearum (Betaproteobacteria).
Probab=36.82 E-value=33 Score=28.29 Aligned_cols=23 Identities=26% Similarity=0.486 Sum_probs=18.0
Q ss_pred cHHHHHHHHhcCceEEEEecCCCc
Q 031045 111 VLDIYHELIHSGLRIWMFSGDTDA 134 (166)
Q Consensus 111 ~~~~~~~ll~~~irvLiY~Gd~D~ 134 (166)
...++..|.+.|.++ .|+||.|.
T Consensus 287 ~~~LL~~L~~~g~~l-~YhGDfD~ 309 (385)
T TIGR02679 287 QIKLLDLLAAAGARL-YYHGDFDW 309 (385)
T ss_pred HHHHHHHHHhcCCeE-EEecCCCh
Confidence 345677777888876 99999995
No 45
>PF00561 Abhydrolase_1: alpha/beta hydrolase fold A web page of Esterases and alpha/beta hydrolases.; InterPro: IPR000073 The alpha/beta hydrolase fold [] is common to a number of hydrolytic enzymes of widely differing phylogenetic origin and catalytic function. The core of each enzyme is an alpha/beta-sheet (rather than a barrel), containing 8 strands connected by helices []. The enzymes are believed to have diverged from a common ancestor, preserving the arrangement of the catalytic residues. All have a catalytic triad, the elements of which are borne on loops, which are the best conserved structural features of the fold. Esterase (EST) from Pseudomonas putida is a member of the alpha/beta hydrolase fold superfamily of enzymes []. In most of the family members the beta-strands are parallels, but some have an inversion of the first strands, which gives it an antiparallel orientation. The catalytic triad residues are presented on loops. One of these is the nucleophile elbow and is the most conserved feature of the fold. Some other members lack one or all of the catalytic residues. Some members are therefore inactive but others are involved in surface recognition. The ESTHER database [] gathers and annotates all the published information related to gene and protein sequences of this superfamily []. This entry represents fold-1 of alpha/beta hydrolase.; PDB: 2VAT_E 2VAX_C 2VAV_H 2PSJ_A 2PSH_B 2PSE_A 2PSF_A 2PSD_A 2EDA_A 1CIJ_A ....
Probab=35.46 E-value=75 Score=22.62 Aligned_cols=29 Identities=14% Similarity=0.280 Sum_probs=23.6
Q ss_pred hcCceEEEEecCCCcccChHHHHHHHHHc
Q 031045 120 HSGLRIWMFSGDTDAVIPVTSARYSIDAL 148 (166)
Q Consensus 120 ~~~irvLiY~Gd~D~i~n~~gt~~~i~~L 148 (166)
+-.+++|+.+|..|.++|........+.+
T Consensus 173 ~i~~p~l~i~~~~D~~~p~~~~~~~~~~~ 201 (230)
T PF00561_consen 173 NIKVPTLIIWGEDDPLVPPESSEQLAKLI 201 (230)
T ss_dssp TTTSEEEEEEETTCSSSHHHHHHHHHHHS
T ss_pred ccCCCeEEEEeCCCCCCCHHHHHHHHHhc
Confidence 34699999999999999998888844443
No 46
>COG4474 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=35.34 E-value=78 Score=23.07 Aligned_cols=29 Identities=14% Similarity=0.189 Sum_probs=23.4
Q ss_pred HHHHHHHHhcCceEEEEecCCCcccChHHHHHHHHH
Q 031045 112 LDIYHELIHSGLRIWMFSGDTDAVIPVTSARYSIDA 147 (166)
Q Consensus 112 ~~~~~~ll~~~irvLiY~Gd~D~i~n~~gt~~~i~~ 147 (166)
...+..||+.|++=++.+|+ +|++.|.-.
T Consensus 32 ~~~l~~lleeGleW~litGq-------LG~E~WA~E 60 (180)
T COG4474 32 KKKLEALLEEGLEWVLITGQ-------LGFELWAAE 60 (180)
T ss_pred HHHHHHHHhcCceEEEEecc-------ccHHHHHHH
Confidence 34667888999999999996 599998643
No 47
>PF01624 MutS_I: MutS domain I C-terminus.; InterPro: IPR007695 Mismatch repair contributes to the overall fidelity of DNA replication and is essential for combating the adverse effects of damage to the genome. It involves the correction of mismatched base pairs that have been missed by the proofreading element of the DNA polymerase complex. The post-replicative Mismatch Repair System (MMRS) of Escherichia coli involves MutS (Mutator S), MutL and MutH proteins, and acts to correct point mutations or small insertion/deletion loops produced during DNA replication []. MutS and MutL are involved in preventing recombination between partially homologous DNA sequences. The assembly of MMRS is initiated by MutS, which recognises and binds to mispaired nucleotides and allows further action of MutL and MutH to eliminate a portion of newly synthesized DNA strand containing the mispaired base []. MutS can also collaborate with methyltransferases in the repair of O(6)-methylguanine damage, which would otherwise pair with thymine during replication to create an O(6)mG:T mismatch []. MutS exists as a dimer, where the two monomers have different conformations and form a heterodimer at the structural level []. Only one monomer recognises the mismatch specifically and has ADP bound. Non-specific major groove DNA-binding domains from both monomers embrace the DNA in a clamp-like structure. Mismatch binding induces ATP uptake and a conformational change in the MutS protein, resulting in a clamp that translocates on DNA. MutS is a modular protein with a complex structure [], and is composed of: N-terminal mismatch-recognition domain, which is similar in structure to tRNA endonuclease. Connector domain, which is similar in structure to Holliday junction resolvase ruvC. Core domain, which is composed of two separate subdomains that join together to form a helical bundle; from within the core domain, two helices act as levers that extend towards (but do not touch) the DNA. Clamp domain, which is inserted between the two subdomains of the core domain at the top of the lever helices; the clamp domain has a beta-sheet structure. ATPase domain (connected to the core domain), which has a classical Walker A motif. HTH (helix-turn-helix) domain, which is involved in dimer contacts. The MutS family of proteins is named after the Salmonella typhimurium MutS protein involved in mismatch repair. Homologues of MutS have been found in many species including eukaryotes (MSH 1, 2, 3, 4, 5, and 6 proteins), archaea and bacteria, and together these proteins have been grouped into the MutS family. Although many of these proteins have similar activities to the E. coli MutS, there is significant diversity of function among the MutS family members. Human MSH has been implicated in non-polyposis colorectal carcinoma (HNPCC) and is a mismatch binding protein [].This diversity is even seen within species, where many species encode multiple MutS homologues with distinct functions []. Inter-species homologues may have arisen through frequent ancient horizontal gene transfer of MutS (and MutL) from bacteria to archaea and eukaryotes via endosymbiotic ancestors of mitochondria and chloroplasts []. This entry represents the N-terminal domain of proteins in the MutS family of DNA mismatch repair proteins, as well as closely related proteins. The N-terminal domain of MutS is responsible for mismatch recognition and forms a 6-stranded mixed beta-sheet surrounded by three alpha-helices, which is similar to the structure of tRNA endonuclease. Yeast MSH3 [], bacterial proteins involved in DNA mismatch repair, and the predicted protein product of the Rep-3 gene of mouse share extensive sequence similarity. Human MSH has been implicated in non-polyposis colorectal carcinoma (HNPCC) and is a mismatch binding protein.; GO: 0005524 ATP binding, 0030983 mismatched DNA binding, 0006298 mismatch repair; PDB: 1FW6_A 1EWQ_A 1EWR_B 1NNE_B 3THY_B 3THZ_B 3THW_B 3THX_B 2WTU_A 1OH7_A ....
Probab=35.07 E-value=46 Score=21.97 Aligned_cols=22 Identities=14% Similarity=0.312 Sum_probs=17.0
Q ss_pred ccHHHHHHHHhcCceEEEEecC
Q 031045 110 IVLDIYHELIHSGLRIWMFSGD 131 (166)
Q Consensus 110 ~~~~~~~~ll~~~irvLiY~Gd 131 (166)
....+++.|+++|+||.||.-.
T Consensus 65 ~l~~~l~~Ll~~G~~V~i~~q~ 86 (113)
T PF01624_consen 65 QLDKYLKKLLEAGYRVAIYEQV 86 (113)
T ss_dssp GHHHHHHHHHHTT-EEEEEEE-
T ss_pred HHHHHHHHHHHcCCEEEEEEec
Confidence 5567889999999999999644
No 48
>TIGR01738 bioH putative pimeloyl-BioC--CoA transferase BioH. This CoA-binding enzyme is required for the production of pimeloyl-coenzyme A, the substrate of the BioF protein early in the biosynthesis of biotin. Its exact function is unknown, but is proposed in ref 2. This enzyme belongs to the alpha/beta hydrolase fold family (pfam model pfam00561). Members of this family are restricted to the Proteobacteria.
Probab=34.86 E-value=63 Score=23.03 Aligned_cols=27 Identities=15% Similarity=0.231 Sum_probs=22.7
Q ss_pred CceEEEEecCCCcccChHHHHHHHHHc
Q 031045 122 GLRIWMFSGDTDAVIPVTSARYSIDAL 148 (166)
Q Consensus 122 ~irvLiY~Gd~D~i~n~~gt~~~i~~L 148 (166)
..+||+..|..|.+++....+...+.+
T Consensus 188 ~~Pvlii~g~~D~~~~~~~~~~~~~~~ 214 (245)
T TIGR01738 188 SVPFLRLYGYLDGLVPAKVVPYLDKLA 214 (245)
T ss_pred CCCEEEEeecCCcccCHHHHHHHHHhC
Confidence 579999999999999988777666555
No 49
>PLN02442 S-formylglutathione hydrolase
Probab=34.36 E-value=43 Score=25.94 Aligned_cols=54 Identities=15% Similarity=0.107 Sum_probs=31.8
Q ss_pred HHhhhCCCCCccccCcccccccHHHHHHHHhcCceEEEEecCCCcccChH-HHHHHHHHc
Q 031045 90 VQKALHVIPAVALAKWETCRIVLDIYHELIHSGLRIWMFSGDTDAVIPVT-SARYSIDAL 148 (166)
Q Consensus 90 V~~aLhv~~~~~~~~w~~c~~~~~~~~~ll~~~irvLiY~Gd~D~i~n~~-gt~~~i~~L 148 (166)
++..++-+. ..|..++...+ ++.+-..+.++||..|+.|.+|+.. .++.+.+.+
T Consensus 190 ~~~~~g~~~----~~~~~~d~~~~-~~~~~~~~~pvli~~G~~D~~v~~~~~s~~~~~~l 244 (283)
T PLN02442 190 FTNYLGSDK----ADWEEYDATEL-VSKFNDVSATILIDQGEADKFLKEQLLPENFEEAC 244 (283)
T ss_pred HHHHcCCCh----hhHHHcChhhh-hhhccccCCCEEEEECCCCccccccccHHHHHHHH
Confidence 455555432 24655442222 2223235689999999999999973 355555544
No 50
>TIGR01689 EcbF-BcbF capsule biosynthesis phosphatase. Due to the likelihood that the substrates of these enzymes are different depending on the nature of the particular polysaccharides associated with each species, this model has been classified as a subfamily despite the close homology.
Probab=34.20 E-value=1.4e+02 Score=20.41 Aligned_cols=50 Identities=14% Similarity=0.186 Sum_probs=33.6
Q ss_pred ccHHHHHHHHhcCceEEEEecCCCcccC----------hHHHHHHHHHcCCCCcc--ccccc
Q 031045 110 IVLDIYHELIHSGLRIWMFSGDTDAVIP----------VTSARYSIDALNLPTVK--PWRAW 159 (166)
Q Consensus 110 ~~~~~~~~ll~~~irvLiY~Gd~D~i~n----------~~gt~~~i~~L~w~~~~--~~~~W 159 (166)
.++..++.+.+.|++|.+.+|-.-..+. ..-|.+|+.+=+.+-.+ -.+||
T Consensus 28 ~~ie~L~~l~~~G~~IiiaTGR~~~~~~~n~~~i~~~~~~~t~~wL~k~~ipYd~l~~~kp~ 89 (126)
T TIGR01689 28 AVIEKLRHYKALGFEIVISSSRNMRTYEGNVGKINIHTLPIIILWLNQHNVPYDEIYVGKPW 89 (126)
T ss_pred HHHHHHHHHHHCCCEEEEECCCCchhhhccccccchhhHHHHHHHHHHcCCCCceEEeCCCc
Confidence 3444555566789999999998765443 34688999876655433 45677
No 51
>TIGR01836 PHA_synth_III_C poly(R)-hydroxyalkanoic acid synthase, class III, PhaC subunit. This model represents the PhaC subunit of a heterodimeric form of polyhydroxyalkanoic acid (PHA) synthase. Excepting the PhaC of Bacillus megaterium (which needs PhaR), all members require PhaE (TIGR01834) for activity and are designated class III. This enzyme builds ester polymers for carbon and energy storage that accumulate in inclusions, and both this enzyme and the depolymerase associate with the inclusions. Class III enzymes polymerize short-chain-length hydroxyalkanoates.
Probab=34.05 E-value=52 Score=26.20 Aligned_cols=28 Identities=14% Similarity=0.271 Sum_probs=25.0
Q ss_pred CceEEEEecCCCcccChHHHHHHHHHcC
Q 031045 122 GLRIWMFSGDTDAVIPVTSARYSIDALN 149 (166)
Q Consensus 122 ~irvLiY~Gd~D~i~n~~gt~~~i~~L~ 149 (166)
..+||+..|+.|.++|....+.+.+.+.
T Consensus 286 ~~Pvliv~G~~D~i~~~~~~~~~~~~~~ 313 (350)
T TIGR01836 286 KMPILNIYAERDHLVPPDASKALNDLVS 313 (350)
T ss_pred CCCeEEEecCCCCcCCHHHHHHHHHHcC
Confidence 5799999999999999999998888774
No 52
>COG2267 PldB Lysophospholipase [Lipid metabolism]
Probab=33.82 E-value=58 Score=25.62 Aligned_cols=32 Identities=19% Similarity=0.323 Sum_probs=28.8
Q ss_pred cCceEEEEecCCCcccC-hHHHHHHHHHcCCCC
Q 031045 121 SGLRIWMFSGDTDAVIP-VTSARYSIDALNLPT 152 (166)
Q Consensus 121 ~~irvLiY~Gd~D~i~n-~~gt~~~i~~L~w~~ 152 (166)
..++|||..|..|.++. ..+..++.+.++-+.
T Consensus 227 ~~~PvLll~g~~D~vv~~~~~~~~~~~~~~~~~ 259 (298)
T COG2267 227 IALPVLLLQGGDDRVVDNVEGLARFFERAGSPD 259 (298)
T ss_pred ccCCEEEEecCCCccccCcHHHHHHHHhcCCCC
Confidence 46999999999999999 699999999998775
No 53
>PF12697 Abhydrolase_6: Alpha/beta hydrolase family; PDB: 3LLC_A 3A2N_E 3A2M_A 3A2L_A 3AFI_F 3C5V_A 3C5W_P 3E0X_A 2ZJF_A 3QYJ_A ....
Probab=33.60 E-value=1e+02 Score=21.48 Aligned_cols=28 Identities=25% Similarity=0.438 Sum_probs=22.0
Q ss_pred cCceEEEEecCCCcccChHHHHHHHHHc
Q 031045 121 SGLRIWMFSGDTDAVIPVTSARYSIDAL 148 (166)
Q Consensus 121 ~~irvLiY~Gd~D~i~n~~gt~~~i~~L 148 (166)
-+.+|++..|+.|.+++..-.+.+.+.+
T Consensus 175 ~~~pvl~i~g~~D~~~~~~~~~~~~~~~ 202 (228)
T PF12697_consen 175 IKVPVLVIHGEDDPIVPPESAEELADKL 202 (228)
T ss_dssp SSSEEEEEEETTSSSSHHHHHHHHHHHS
T ss_pred cCCCeEEeecCCCCCCCHHHHHHHHHHC
Confidence 3699999999999999955555555555
No 54
>TIGR03056 bchO_mg_che_rel putative magnesium chelatase accessory protein. Members of this family belong to the alpha/beta fold family hydrolases (PFAM model pfam00561). Members are found in bacterial genomes if and only if they encoded for anoxygenic photosynthetic systems similar to that of Rhodobacter capsulatus and other alpha-Proteobacteria. Members often are encoded in the same operon as subunits of the protoporphyrin IX magnesium chelatase, and were once designated BchO. No literature supports a role as an actual subunit of magnesium chelatase, but an accessory role is possible, as suggested by placement by its probable hydrolase activity.
Probab=32.90 E-value=57 Score=24.23 Aligned_cols=27 Identities=11% Similarity=0.420 Sum_probs=23.2
Q ss_pred CceEEEEecCCCcccChHHHHHHHHHc
Q 031045 122 GLRIWMFSGDTDAVIPVTSARYSIDAL 148 (166)
Q Consensus 122 ~irvLiY~Gd~D~i~n~~gt~~~i~~L 148 (166)
.+++|+..|+.|.++|....+.+.+.+
T Consensus 220 ~~P~lii~g~~D~~vp~~~~~~~~~~~ 246 (278)
T TIGR03056 220 TIPLHLIAGEEDKAVPPDESKRAATRV 246 (278)
T ss_pred CCCEEEEEeCCCcccCHHHHHHHHHhc
Confidence 479999999999999988877777665
No 55
>PLN02385 hydrolase; alpha/beta fold family protein
Probab=32.52 E-value=66 Score=25.52 Aligned_cols=29 Identities=14% Similarity=0.357 Sum_probs=25.2
Q ss_pred CceEEEEecCCCcccChHHHHHHHHHcCC
Q 031045 122 GLRIWMFSGDTDAVIPVTSARYSIDALNL 150 (166)
Q Consensus 122 ~irvLiY~Gd~D~i~n~~gt~~~i~~L~w 150 (166)
.+++||..|+.|.+++....+...+.+.-
T Consensus 279 ~~P~Lii~G~~D~vv~~~~~~~l~~~~~~ 307 (349)
T PLN02385 279 SLPLLILHGEADKVTDPSVSKFLYEKASS 307 (349)
T ss_pred CCCEEEEEeCCCCccChHHHHHHHHHcCC
Confidence 58999999999999999888888777743
No 56
>PRK11001 mtlR mannitol repressor protein; Provisional
Probab=31.06 E-value=55 Score=23.82 Aligned_cols=28 Identities=21% Similarity=0.452 Sum_probs=22.4
Q ss_pred cccccchHHHHHHHhCCCCHHHHHHHHh
Q 031045 10 DYHDYLGLFQFWWSAGLISDDTYKQLKL 37 (166)
Q Consensus 10 ~~~~~~~~~~~~~~~glI~~~~~~~~~~ 37 (166)
|..+......-+|+.|+||.+.|+.+..
T Consensus 60 PLg~lsVRLKLlygLGvIs~~~Y~Die~ 87 (171)
T PRK11001 60 PLGDLSVRLKLLYGLGVISREEYEDIEL 87 (171)
T ss_pred CchhHHHHHHHHHHccCCCHHHHHhHHH
Confidence 4445566778899999999999988765
No 57
>PHA02567 rnh RnaseH; Provisional
Probab=30.74 E-value=51 Score=26.29 Aligned_cols=45 Identities=16% Similarity=0.223 Sum_probs=27.0
Q ss_pred hHHHhhhCCCCCccccCcccccccHHHHHHHH-hcCceEEEEecCCCc
Q 031045 88 PEVQKALHVIPAVALAKWETCRIVLDIYHELI-HSGLRIWMFSGDTDA 134 (166)
Q Consensus 88 ~~V~~aLhv~~~~~~~~w~~c~~~~~~~~~ll-~~~irvLiY~Gd~D~ 134 (166)
.++.+++|++.-. ...++. .+++-.+..-. ..|.+|+|+|||.|+
T Consensus 113 ~el~~~~gi~~l~-~~g~EA-DDvIgTLA~k~~~~g~~VvIvS~DKDl 158 (304)
T PHA02567 113 DEIKENMPYKVMK-IDKAEA-DDIIAVLTKKFSAEGRPVLIVSSDGDF 158 (304)
T ss_pred HHHHHHCCCCEEE-eCCccH-HHHHHHHHHHHHhCCCcEEEEeCCCCh
Confidence 4566777875321 112221 15555554433 467999999999997
No 58
>PRK07581 hypothetical protein; Validated
Probab=30.40 E-value=87 Score=24.62 Aligned_cols=27 Identities=11% Similarity=0.181 Sum_probs=23.6
Q ss_pred CceEEEEecCCCcccChHHHHHHHHHc
Q 031045 122 GLRIWMFSGDTDAVIPVTSARYSIDAL 148 (166)
Q Consensus 122 ~irvLiY~Gd~D~i~n~~gt~~~i~~L 148 (166)
.+++|+..|+.|.++|....+.+.+.+
T Consensus 275 ~~PtLvI~G~~D~~~p~~~~~~l~~~i 301 (339)
T PRK07581 275 TAKTFVMPISTDLYFPPEDCEAEAALI 301 (339)
T ss_pred CCCEEEEEeCCCCCCCHHHHHHHHHhC
Confidence 589999999999999998888776665
No 59
>PRK14511 maltooligosyl trehalose synthase; Provisional
Probab=29.78 E-value=55 Score=30.10 Aligned_cols=46 Identities=15% Similarity=0.246 Sum_probs=35.6
Q ss_pred ccHHHHHHHHhcCceEEEEecCCCcccChHHH-----HHHHHHcCCCCcccccccc
Q 031045 110 IVLDIYHELIHSGLRIWMFSGDTDAVIPVTSA-----RYSIDALNLPTVKPWRAWY 160 (166)
Q Consensus 110 ~~~~~~~~ll~~~irvLiY~Gd~D~i~n~~gt-----~~~i~~L~w~~~~~~~~W~ 160 (166)
.+..+++.+-++|++|++ |.+.|++|. .+|..-|.+...++++.|+
T Consensus 70 ~f~~Lv~aah~~Gi~VIl-----DiV~NH~~~~~~~n~ww~dvl~~g~~S~y~~~F 120 (879)
T PRK14511 70 GLRRLAAALRAHGMGLIL-----DIVPNHMAVGGPDNPWWWDVLEWGRSSPYADFF 120 (879)
T ss_pred HHHHHHHHHHHCCCEEEE-----EeccccccCcCccCHHHHHHHHhCCCCCccCce
Confidence 444555666668999997 999999986 4588888887778888886
No 60
>PLN03087 BODYGUARD 1 domain containing hydrolase; Provisional
Probab=29.62 E-value=99 Score=26.32 Aligned_cols=35 Identities=17% Similarity=0.257 Sum_probs=26.7
Q ss_pred HHHHHh-cCceEEEEecCCCcccChHHHHHHHHHcC
Q 031045 115 YHELIH-SGLRIWMFSGDTDAVIPVTSARYSIDALN 149 (166)
Q Consensus 115 ~~~ll~-~~irvLiY~Gd~D~i~n~~gt~~~i~~L~ 149 (166)
+..++. -.+++||..|+.|.++|....+...+.+.
T Consensus 410 l~~l~~~I~vPtLII~Ge~D~ivP~~~~~~la~~iP 445 (481)
T PLN03087 410 LDHVRDQLKCDVAIFHGGDDELIPVECSYAVKAKVP 445 (481)
T ss_pred HHHHHHhCCCCEEEEEECCCCCCCHHHHHHHHHhCC
Confidence 334442 26899999999999999998887766663
No 61
>PRK14507 putative bifunctional 4-alpha-glucanotransferase/malto-oligosyltrehalose synthase; Provisional
Probab=28.51 E-value=49 Score=32.68 Aligned_cols=43 Identities=19% Similarity=0.189 Sum_probs=33.4
Q ss_pred HHHHHHHhcCceEEEEecCCCcccChHH-----HHHHHHHcCCCCcccccccc
Q 031045 113 DIYHELIHSGLRIWMFSGDTDAVIPVTS-----ARYSIDALNLPTVKPWRAWY 160 (166)
Q Consensus 113 ~~~~~ll~~~irvLiY~Gd~D~i~n~~g-----t~~~i~~L~w~~~~~~~~W~ 160 (166)
.+++.+-++|++|++ |++.|++| +.+|.+.|.+...++++.|+
T Consensus 811 ~Lv~~ah~~Gi~vil-----DiV~NH~~~~~~~n~w~~dvl~~g~~S~y~~~F 858 (1693)
T PRK14507 811 RFCAALKAHGLGQLL-----DIVPNHMGVGGADNPWWLDVLENGPASPAADAF 858 (1693)
T ss_pred HHHHHHHHCCCEEEE-----EecccccCCCccCCHHHHHHHHhCCCCCccCee
Confidence 344444457999998 99999998 66888888887777887776
No 62
>PRK10349 carboxylesterase BioH; Provisional
Probab=28.37 E-value=99 Score=22.94 Aligned_cols=28 Identities=11% Similarity=0.109 Sum_probs=21.7
Q ss_pred cCceEEEEecCCCcccChHHHHHHHHHc
Q 031045 121 SGLRIWMFSGDTDAVIPVTSARYSIDAL 148 (166)
Q Consensus 121 ~~irvLiY~Gd~D~i~n~~gt~~~i~~L 148 (166)
-.++|||..|..|.++|....+...+.+
T Consensus 195 i~~P~lii~G~~D~~~~~~~~~~~~~~i 222 (256)
T PRK10349 195 VSMPFLRLYGYLDGLVPRKVVPMLDKLW 222 (256)
T ss_pred cCCCeEEEecCCCccCCHHHHHHHHHhC
Confidence 3589999999999999987665444443
No 63
>TIGR02401 trehalose_TreY malto-oligosyltrehalose synthase. This enzyme, formally named (1-4)-alpha-D-glucan 1-alpha-D-glucosylmutase, is the TreY enzyme of the TreYZ pathway of trehalose biosynthesis, an alternative to the OtsAB pathway. Trehalose may be incorporated into more complex compounds but is best known as compatible solute. It is one of the most effective osmoprotectants, and unlike the various betaines does not require nitrogen for its synthesis.
Probab=27.65 E-value=61 Score=29.62 Aligned_cols=46 Identities=13% Similarity=0.157 Sum_probs=34.6
Q ss_pred ccHHHHHHHHhcCceEEEEecCCCcccChHHH-----HHHHHHcCCCCcccccccc
Q 031045 110 IVLDIYHELIHSGLRIWMFSGDTDAVIPVTSA-----RYSIDALNLPTVKPWRAWY 160 (166)
Q Consensus 110 ~~~~~~~~ll~~~irvLiY~Gd~D~i~n~~gt-----~~~i~~L~w~~~~~~~~W~ 160 (166)
.+..+++.+-++|++|++ |.+.|++|. .+|.+.|.+...++++.|+
T Consensus 66 df~~Lv~aah~~Gm~vIl-----DiVpNH~a~~~~~n~wf~dvl~~g~~S~y~~~F 116 (825)
T TIGR02401 66 GLRRLSEAARARGLGLIV-----DIVPNHMAVHLEQNPWWWDVLKNGPSSAYAEYF 116 (825)
T ss_pred HHHHHHHHHHHCCCEEEE-----EecccccccccccChHHHHHHHhCCCCCccCce
Confidence 344455555568999998 999999985 4677778877777888776
No 64
>PRK03592 haloalkane dehalogenase; Provisional
Probab=26.94 E-value=68 Score=24.50 Aligned_cols=27 Identities=7% Similarity=0.144 Sum_probs=21.3
Q ss_pred CceEEEEecCCCcccChHHHHHHHHHc
Q 031045 122 GLRIWMFSGDTDAVIPVTSARYSIDAL 148 (166)
Q Consensus 122 ~irvLiY~Gd~D~i~n~~gt~~~i~~L 148 (166)
.+++||..|+.|.+++......++.++
T Consensus 228 ~~P~lii~G~~D~~~~~~~~~~~~~~~ 254 (295)
T PRK03592 228 DVPKLLINAEPGAILTTGAIRDWCRSW 254 (295)
T ss_pred CCCeEEEeccCCcccCcHHHHHHHHHh
Confidence 589999999999999666666666543
No 65
>TIGR01249 pro_imino_pep_1 proline iminopeptidase, Neisseria-type subfamily. This model represents one of two related families of proline iminopeptidase in the alpha/beta fold hydrolase family. The fine specificities of the various members, including both the range of short peptides from which proline can be removed and whether other amino acids such as alanine can be also removed, may vary among members.
Probab=26.73 E-value=1.3e+02 Score=23.29 Aligned_cols=28 Identities=21% Similarity=0.298 Sum_probs=24.3
Q ss_pred CceEEEEecCCCcccChHHHHHHHHHcC
Q 031045 122 GLRIWMFSGDTDAVIPVTSARYSIDALN 149 (166)
Q Consensus 122 ~irvLiY~Gd~D~i~n~~gt~~~i~~L~ 149 (166)
.+++||..|+.|.+||....+...+.+.
T Consensus 248 ~~P~lii~g~~D~~~p~~~~~~~~~~~~ 275 (306)
T TIGR01249 248 NIPTYIVHGRYDLCCPLQSAWALHKAFP 275 (306)
T ss_pred CCCeEEEecCCCCCCCHHHHHHHHHhCC
Confidence 4799999999999999988887777764
No 66
>TIGR03343 biphenyl_bphD 2-hydroxy-6-oxo-6-phenylhexa-2,4-dienoate hydrolase. Members of this family are 2-hydroxy-6-oxo-6-phenylhexa-2,4-dienoate hydrolase, or HOPD hydrolase, the BphD protein of biphenyl degradation. BphD acts on the product of ring meta-cleavage by BphC. Many species carrying bphC and bphD are capable of degrading polychlorinated biphenyls as well as biphenyl itself.
Probab=26.28 E-value=1.2e+02 Score=22.71 Aligned_cols=27 Identities=11% Similarity=0.153 Sum_probs=22.3
Q ss_pred CceEEEEecCCCcccChHHHHHHHHHc
Q 031045 122 GLRIWMFSGDTDAVIPVTSARYSIDAL 148 (166)
Q Consensus 122 ~irvLiY~Gd~D~i~n~~gt~~~i~~L 148 (166)
..+||+..|..|.+++..-.+.+.+.+
T Consensus 223 ~~Pvlli~G~~D~~v~~~~~~~~~~~~ 249 (282)
T TIGR03343 223 KAKTLVTWGRDDRFVPLDHGLKLLWNM 249 (282)
T ss_pred CCCEEEEEccCCCcCCchhHHHHHHhC
Confidence 578999999999999987677666655
No 67
>PF09456 RcsC: RcsC Alpha-Beta-Loop (ABL); InterPro: IPR019017 This domain is found in the C terminus of the signal transduction response regulator (phospho-relay) kinase RcsC, between the ATP-binding region (IPR003594 from INTERPRO) and the receiver region (IPR001789 from INTERPRO). This domain forms a discrete alpha/beta/loop structure []. The Rcs signalling pathway controls a variety of physiological functions like capsule synthesis, cell division or motility in prokaryotes. The Rcs regulation cascade, involving a multi-step phosphorelay between the two membrane-bound hybrid sensor kinases RcsC and RcsD and the global regulator RcsB, is, up to now, one of the most complicated regulatory systems in bacteria []. ; GO: 0004673 protein histidine kinase activity, 0004871 signal transducer activity, 0005524 ATP binding, 0000160 two-component signal transduction system (phosphorelay), 0006355 regulation of transcription, DNA-dependent, 0018106 peptidyl-histidine phosphorylation, 0005886 plasma membrane, 0016021 integral to membrane; PDB: 2AYY_A 2AYX_A.
Probab=26.12 E-value=57 Score=21.17 Aligned_cols=23 Identities=13% Similarity=0.403 Sum_probs=16.7
Q ss_pred ccHHHHHHHHh-cCceEEEEecCC
Q 031045 110 IVLDIYHELIH-SGLRIWMFSGDT 132 (166)
Q Consensus 110 ~~~~~~~~ll~-~~irvLiY~Gd~ 132 (166)
.+..+++.||. +|+.|..|.|+.
T Consensus 10 ~Le~yL~~lL~~~G~~v~~y~~q~ 33 (92)
T PF09456_consen 10 YLESYLQRLLSYHGFQVQRYEGQQ 33 (92)
T ss_dssp HHHHHHHHHHCTTTEEEEE-SS--
T ss_pred HHHHHHHHHHHHCCcEEEEecCCC
Confidence 55678888885 799999999874
No 68
>KOG4178 consensus Soluble epoxide hydrolase [Lipid transport and metabolism]
Probab=25.90 E-value=70 Score=25.76 Aligned_cols=22 Identities=23% Similarity=0.342 Sum_probs=18.5
Q ss_pred CceEEEEecCCCcccChHHHHH
Q 031045 122 GLRIWMFSGDTDAVIPVTSARY 143 (166)
Q Consensus 122 ~irvLiY~Gd~D~i~n~~gt~~ 143 (166)
-++|+++.|+.|.++++.....
T Consensus 258 ~iPv~fi~G~~D~v~~~p~~~~ 279 (322)
T KOG4178|consen 258 TIPVLFIWGDLDPVLPYPIFGE 279 (322)
T ss_pred ccceEEEEecCcccccchhHHH
Confidence 4899999999999999994333
No 69
>COG0447 MenB Dihydroxynaphthoic acid synthase [Coenzyme metabolism]
Probab=25.63 E-value=1.2e+02 Score=23.32 Aligned_cols=37 Identities=19% Similarity=0.441 Sum_probs=23.1
Q ss_pred hccCchHHHhhhCCCCCccccCcccccccHHHHHHHH----hcCceEEEEecC
Q 031045 83 VYFNQPEVQKALHVIPAVALAKWETCRIVLDIYHELI----HSGLRIWMFSGD 131 (166)
Q Consensus 83 ~ylN~~~V~~aLhv~~~~~~~~w~~c~~~~~~~~~ll----~~~irvLiY~Gd 131 (166)
-=+|||+||.|+.-. .+...+..+- +.++-|+|..|.
T Consensus 32 ItinRPevrNAfrP~------------TV~Em~~Af~~Ar~d~~vGvi~lTG~ 72 (282)
T COG0447 32 ITINRPEVRNAFRPK------------TVDEMIDAFADARDDPNVGVILLTGN 72 (282)
T ss_pred EEecChhhhccCCCc------------cHHHHHHHHHhhhcCCCccEEEEecC
Confidence 348999999998521 2233333333 246888888864
No 70
>cd08327 CARD_RAIDD Caspase activation and recruitment domain of RIP-associated ICH-1 homologous protein with a death domain. Caspase activation and recruitment domain (CARD) of RAIDD (RIP-associated ICH-1 homologous protein with a death domain), also known as CRADD (Caspase and RIP adaptor). RAIDD is an adaptor protein that together with the p53-inducible protein PIDD and caspase-2, forms the PIDDosome complex, which is required for caspase-2 activation and plays a role in mediating stress-induced apoptosis. RAIDD contains an N-terminal CARD, which interacts with the caspase-2 CARD, and a C-terminal Death domain (DD), which interacts with the DD of PIDD. In general, CARDs are DDs associated with caspases. They are known to be important in the signaling pathways for apoptosis, inflammation and host-defense mechanisms. DDs are protein-protein interaction domains found in a variety of domain architectures. Their common feature is that they form homodimers by self-association or heterodime
Probab=25.07 E-value=89 Score=20.26 Aligned_cols=21 Identities=10% Similarity=0.548 Sum_probs=19.1
Q ss_pred HHHHHHHhCCCCHHHHHHHHh
Q 031045 17 LFQFWWSAGLISDDTYKQLKL 37 (166)
Q Consensus 17 ~~~~~~~~glI~~~~~~~~~~ 37 (166)
..+|+|+.|+|+++.++.++.
T Consensus 26 v~~~L~~~gIlT~~~~e~I~a 46 (94)
T cd08327 26 VIQYLYQEGILTESHVEEIES 46 (94)
T ss_pred HHHHHHhCCCCCHHHHHHHHc
Confidence 678999999999999999876
No 71
>PF15237 PTRF_SDPR: PTRF/SDPR family
Probab=24.64 E-value=58 Score=25.02 Aligned_cols=19 Identities=16% Similarity=0.522 Sum_probs=14.9
Q ss_pred HHHHHh-cCceEEEEecCCC
Q 031045 115 YHELIH-SGLRIWMFSGDTD 133 (166)
Q Consensus 115 ~~~ll~-~~irvLiY~Gd~D 133 (166)
..+||. .++|||||.++.-
T Consensus 95 ~~eLL~Rn~FkVlI~Qee~e 114 (246)
T PF15237_consen 95 HAELLKRNKFKVLIFQEENE 114 (246)
T ss_pred HHHHhhccCceEEecccccc
Confidence 357775 4699999999875
No 72
>cd08330 CARD_ASC_NALP1 Caspase activation and recruitment domain found in Human ASC, NALP1, and similar proteins. Caspase activation and recruitment domain (CARD) similar to those found in human ASC (Apoptosis-associated speck-like protein containing a CARD) and NALP1 (CARD7, NLRP1). ASC, an adaptor molecule, and NALP1, a member of the Nod-like receptor (NLR) family, are involved in the assembly of the 'inflammasome', a multiprotein platform, which is responsible for caspase-1 activation and regulation of IL-1beta maturation. In general, CARDs are death domains (DDs) associated with caspases. They are known to be important in the signaling pathways for apoptosis, inflammation and host-defense mechanisms. DDs are protein-protein interaction domains found in a variety of domain architectures. Their common feature is that they form homodimers by self-association or heterodimers by associating with other members of the DD superfamily including PYRIN and DED (Death Effector Domain). They se
Probab=24.27 E-value=96 Score=19.40 Aligned_cols=25 Identities=8% Similarity=0.190 Sum_probs=20.7
Q ss_pred cchHHHHHHHhCCCCHHHHHHHHhc
Q 031045 14 YLGLFQFWWSAGLISDDTYKQLKLL 38 (166)
Q Consensus 14 ~~~~~~~~~~~glI~~~~~~~~~~~ 38 (166)
.....+.+++.|+|+++.|+.+++.
T Consensus 17 v~~ilD~L~~~~Vit~e~~~~I~a~ 41 (82)
T cd08330 17 VDPILDKLHGKKVITQEQYSEVRAE 41 (82)
T ss_pred HHHHHHHHHHCCCCCHHHHHHHHcC
Confidence 3456788899999999999999773
No 73
>PF06821 Ser_hydrolase: Serine hydrolase; InterPro: IPR010662 This family contains a number of hypothetical bacterial proteins of unknown function, which may be cytosolic. The Crystal Structure Of The Yden Gene Product Swiss:P96671 from B. Subtilis has been solved. The structure shows an alpha-beta hydrolase fold suggesting an enzymatic function for these proteins [].; GO: 0016787 hydrolase activity; PDB: 3BDV_B 2QS9_A 1UXO_A.
Probab=23.85 E-value=95 Score=22.25 Aligned_cols=28 Identities=18% Similarity=0.286 Sum_probs=23.6
Q ss_pred ceEEEEecCCCcccChHHHHHHHHHcCC
Q 031045 123 LRIWMFSGDTDAVIPVTSARYSIDALNL 150 (166)
Q Consensus 123 irvLiY~Gd~D~i~n~~gt~~~i~~L~w 150 (166)
++.+++..+.|..||+.-++.+.+.|+=
T Consensus 115 ~~~~viaS~nDp~vp~~~a~~~A~~l~a 142 (171)
T PF06821_consen 115 FPSIVIASDNDPYVPFERAQRLAQRLGA 142 (171)
T ss_dssp CCEEEEEETTBSSS-HHHHHHHHHHHT-
T ss_pred CCeEEEEcCCCCccCHHHHHHHHHHcCC
Confidence 5668999999999999999999999864
No 74
>PRK05077 frsA fermentation/respiration switch protein; Reviewed
Probab=23.48 E-value=1e+02 Score=25.55 Aligned_cols=27 Identities=11% Similarity=-0.015 Sum_probs=23.0
Q ss_pred CceEEEEecCCCcccChHHHHHHHHHc
Q 031045 122 GLRIWMFSGDTDAVIPVTSARYSIDAL 148 (166)
Q Consensus 122 ~irvLiY~Gd~D~i~n~~gt~~~i~~L 148 (166)
.+++|+.+|..|.++|....+...+..
T Consensus 355 ~~PvLiI~G~~D~ivP~~~a~~l~~~~ 381 (414)
T PRK05077 355 PTPMLSGYWKNDPFSPEEDSRLIASSS 381 (414)
T ss_pred CCcEEEEecCCCCCCCHHHHHHHHHhC
Confidence 478999999999999999998765544
No 75
>COG1506 DAP2 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]
Probab=22.92 E-value=70 Score=28.01 Aligned_cols=33 Identities=21% Similarity=0.362 Sum_probs=28.9
Q ss_pred CceEEEEecCCCcccChHHHHHHHHHcCCCCcc
Q 031045 122 GLRIWMFSGDTDAVIPVTSARYSIDALNLPTVK 154 (166)
Q Consensus 122 ~irvLiY~Gd~D~i~n~~gt~~~i~~L~w~~~~ 154 (166)
.-++||..|..|..|+..-++++..+|+-.+..
T Consensus 551 ~~P~LliHG~~D~~v~~~q~~~~~~aL~~~g~~ 583 (620)
T COG1506 551 KTPLLLIHGEEDDRVPIEQAEQLVDALKRKGKP 583 (620)
T ss_pred CCCEEEEeecCCccCChHHHHHHHHHHHHcCce
Confidence 358999999999999999999999999765543
No 76
>PF11165 DUF2949: Protein of unknown function (DUF2949); InterPro: IPR021336 This family of proteins with unknown function appear to be restricted to Cyanobacteria.
Probab=22.85 E-value=79 Score=18.63 Aligned_cols=21 Identities=29% Similarity=0.439 Sum_probs=16.0
Q ss_pred hHHHHHHHhCCCCHHHHHHHH
Q 031045 16 GLFQFWWSAGLISDDTYKQLK 36 (166)
Q Consensus 16 ~~~~~~~~~glI~~~~~~~~~ 36 (166)
..+.-+++.|||+-++.+.+-
T Consensus 33 pLPmiLWqyGLItL~QL~~i~ 53 (58)
T PF11165_consen 33 PLPMILWQYGLITLEQLDQIF 53 (58)
T ss_pred CcchHHHHhccccHHHHHHHH
Confidence 344557899999999988764
No 77
>cd08332 CARD_CASP2 Caspase activation and recruitment domain of Caspase-2. Caspase activation and recruitment domain (CARD) similar to that found in caspase-2. Caspases are aspartate-specific cysteine proteases with functions in apoptosis and immune signaling. Caspase-2 (also known as ICH1, NEDD2, or CASP2) is one of the most evolutionarily conserved caspases, and plays a role in apoptosis, DNA damage response, cell cycle regulation, and tumor suppression. It is localized in the nucleus and exhibits properties of both an initiator and an effector caspase. In general, CARDs are death domains (DDs) found associated with caspases. They are known to be important in the signaling pathways for apoptosis, inflammation, and host-defense mechanisms. DDs are protein-protein interaction domains found in a variety of domain architectures. Their common feature is that they form homodimers by self-association or heterodimers by associating with other members of the DD superfamily including PYRIN and
Probab=22.83 E-value=1.1e+02 Score=19.57 Aligned_cols=25 Identities=8% Similarity=0.081 Sum_probs=21.0
Q ss_pred ccchHHHHHHHhCCCCHHHHHHHHh
Q 031045 13 DYLGLFQFWWSAGLISDDTYKQLKL 37 (166)
Q Consensus 13 ~~~~~~~~~~~~glI~~~~~~~~~~ 37 (166)
+.....+++++.|+++++.++.+..
T Consensus 21 ~~~~v~~~L~~~gvlt~~~~~~I~~ 45 (90)
T cd08332 21 VLDELLIHLLQKDILTDSMAESIMA 45 (90)
T ss_pred CHHHHHHHHHHcCCCCHHHHHHHHc
Confidence 3455788999999999999999876
No 78
>TIGR02240 PHA_depoly_arom poly(3-hydroxyalkanoate) depolymerase. This family consists of the polyhydroxyalkanoic acid (PHA) depolymerase of Pseudomonas oleovorans, Pseudomonas putida BM01, and related species. This enzyme is part of polyester storage and mobilization system as in many bacteria. However, species containing this enzyme are unusual in their capacity to produce aromatic polyesters when grown on carbon sources such as benzoic acid or phenylacetic acid.
Probab=22.78 E-value=1e+02 Score=23.22 Aligned_cols=28 Identities=21% Similarity=0.361 Sum_probs=23.1
Q ss_pred CceEEEEecCCCcccChHHHHHHHHHcC
Q 031045 122 GLRIWMFSGDTDAVIPVTSARYSIDALN 149 (166)
Q Consensus 122 ~irvLiY~Gd~D~i~n~~gt~~~i~~L~ 149 (166)
.+++||..|+.|.++|....+...+.+.
T Consensus 207 ~~P~lii~G~~D~~v~~~~~~~l~~~~~ 234 (276)
T TIGR02240 207 QQPTLVLAGDDDPIIPLINMRLLAWRIP 234 (276)
T ss_pred CCCEEEEEeCCCCcCCHHHHHHHHHhCC
Confidence 5799999999999999887776665553
No 79
>PF14926 DUF4498: Domain of unknown function (DUF4498)
Probab=22.43 E-value=59 Score=25.14 Aligned_cols=43 Identities=23% Similarity=0.702 Sum_probs=30.2
Q ss_pred chhhhccCchHHHhhhCCCC-CccccCccc--------------cc-ccHHHHHHHHhcCc
Q 031045 79 KHSVVYFNQPEVQKALHVIP-AVALAKWET--------------CR-IVLDIYHELIHSGL 123 (166)
Q Consensus 79 ~~~~~ylN~~~V~~aLhv~~-~~~~~~w~~--------------c~-~~~~~~~~ll~~~i 123 (166)
..+.+|+++|.|+..|.+.. .. ..|.. |+ .++.++..|.+.||
T Consensus 49 ~Fl~dFF~D~~V~~~L~~~s~~~--g~w~~l~~~v~~V~~e~v~ct~~SM~fFDkL~~~gI 107 (247)
T PF14926_consen 49 DFLLDFFQDPSVRSSLQLLSDSS--GSWTTLGSPVSSVEVEQVPCTATSMDFFDKLYSNGI 107 (247)
T ss_pred HHHHHHhcCcchhhheecccccC--CccccCCCcccEEEEEEecceeeehhhhhhhccCCe
Confidence 56889999999999999863 21 45763 22 45567777776553
No 80
>TIGR01250 pro_imino_pep_2 proline-specific peptidases, Bacillus coagulans-type subfamily. This model describes a subfamily of the alpha/beta fold family of hydrolases. Characterized members include prolinases (Pro-Xaa dipeptidase, EC 3.4.13.8), prolyl aminopeptidases (EC 3.4.11.5), and a leucyl aminopeptidase
Probab=22.37 E-value=1.4e+02 Score=21.93 Aligned_cols=28 Identities=14% Similarity=0.185 Sum_probs=21.1
Q ss_pred hcCceEEEEecCCCcccChHHHHHHHHHc
Q 031045 120 HSGLRIWMFSGDTDAVIPVTSARYSIDAL 148 (166)
Q Consensus 120 ~~~irvLiY~Gd~D~i~n~~gt~~~i~~L 148 (166)
+-+++||+..|+.|.+ +....+.+.+.+
T Consensus 229 ~i~~P~lii~G~~D~~-~~~~~~~~~~~~ 256 (288)
T TIGR01250 229 EIKVPTLLTVGEFDTM-TPEAAREMQELI 256 (288)
T ss_pred ccCCCEEEEecCCCcc-CHHHHHHHHHhc
Confidence 3468999999999985 446666666655
No 81
>PRK09482 flap endonuclease-like protein; Provisional
Probab=22.29 E-value=1e+02 Score=23.89 Aligned_cols=26 Identities=12% Similarity=0.155 Sum_probs=18.3
Q ss_pred ccHHHHH-HHHhcCceEEEEecCCCcc
Q 031045 110 IVLDIYH-ELIHSGLRIWMFSGDTDAV 135 (166)
Q Consensus 110 ~~~~~~~-~ll~~~irvLiY~Gd~D~i 135 (166)
+++-.+. ...+.|.+|+|+|+|.|+.
T Consensus 110 DvIatla~~~~~~~~~v~I~S~DKDl~ 136 (256)
T PRK09482 110 DLIATLAVKVAQAGHQATIVSTDKGYC 136 (256)
T ss_pred HHHHHHHHHHHHCCCeEEEEECCCCcc
Confidence 4444343 3345689999999999984
No 82
>COG2427 Uncharacterized conserved protein [Function unknown]
Probab=22.15 E-value=34 Score=24.15 Aligned_cols=16 Identities=25% Similarity=0.455 Sum_probs=13.8
Q ss_pred hhhccCchHHHhhhCC
Q 031045 81 SVVYFNQPEVQKALHV 96 (166)
Q Consensus 81 ~~~ylN~~~V~~aLhv 96 (166)
+-+=|++|+|+++|++
T Consensus 119 Llk~LkDPdvq~~Lg~ 134 (148)
T COG2427 119 LLKALKDPDVQRGLGF 134 (148)
T ss_pred HHHHcCCHHHHHHHHH
Confidence 5667999999999985
No 83
>PRK00870 haloalkane dehalogenase; Provisional
Probab=22.10 E-value=1.3e+02 Score=23.11 Aligned_cols=30 Identities=10% Similarity=-0.038 Sum_probs=22.1
Q ss_pred HHhcCceEEEEecCCCcccChHHHHHHHHHc
Q 031045 118 LIHSGLRIWMFSGDTDAVIPVTSARYSIDAL 148 (166)
Q Consensus 118 ll~~~irvLiY~Gd~D~i~n~~gt~~~i~~L 148 (166)
+-+-.+++||..|..|.+++... +...+.+
T Consensus 235 l~~i~~P~lii~G~~D~~~~~~~-~~~~~~~ 264 (302)
T PRK00870 235 LERWDKPFLTAFSDSDPITGGGD-AILQKRI 264 (302)
T ss_pred hhcCCCceEEEecCCCCcccCch-HHHHhhc
Confidence 33446899999999999999755 5444444
No 84
>PHA02450 hypothetical protein
Probab=22.00 E-value=20 Score=19.96 Aligned_cols=20 Identities=20% Similarity=0.287 Sum_probs=14.7
Q ss_pred cCCCcccChHHHHHHHHHcC
Q 031045 130 GDTDAVIPVTSARYSIDALN 149 (166)
Q Consensus 130 Gd~D~i~n~~gt~~~i~~L~ 149 (166)
|+.|..||--|..+.+.+|+
T Consensus 32 g~fdpfcpdhg~~~~vas~e 51 (53)
T PHA02450 32 GQFDPFCPDHGNPEYVASLE 51 (53)
T ss_pred CccCCCCCCCCChhheeecc
Confidence 67888888888777665553
No 85
>PF06014 DUF910: Bacterial protein of unknown function (DUF910); InterPro: IPR009256 This family consists of several short bacterial proteins of unknown function.; PDB: 2NN4_A.
Probab=21.36 E-value=1.1e+02 Score=18.38 Aligned_cols=16 Identities=31% Similarity=0.590 Sum_probs=12.0
Q ss_pred HHHhCCCCHHHHHHHH
Q 031045 21 WWSAGLISDDTYKQLK 36 (166)
Q Consensus 21 ~~~~glI~~~~~~~~~ 36 (166)
+|..|+|+.+.|..+.
T Consensus 37 Ly~~~lidk~~y~~A~ 52 (62)
T PF06014_consen 37 LYKSGLIDKKEYLTAK 52 (62)
T ss_dssp HHHTTSS-HHHHHHHH
T ss_pred HHHcCCCCHHHHHHHH
Confidence 5789999999987653
No 86
>cd06167 LabA_like LabA_like proteins. A well conserved group of bacterial proteins with no defined function. LabA, a member from Synechococcus elongatus PCC 7942, has been shown to play a role in cyanobacterial circadian timing. It is required for negative feedback regulation of the autokinase/autophosphatase KaiC, a central component of the circadian clock system. In particular, LabA seems necessary for KaiC-dependent repression of gene expression.
Probab=21.35 E-value=1.1e+02 Score=20.87 Aligned_cols=22 Identities=14% Similarity=0.152 Sum_probs=19.6
Q ss_pred ccHHHHHHHHhcCceEEEEecC
Q 031045 110 IVLDIYHELIHSGLRIWMFSGD 131 (166)
Q Consensus 110 ~~~~~~~~ll~~~irvLiY~Gd 131 (166)
++.|.++.|.+.|.+|.+++=.
T Consensus 111 Df~~~i~~lr~~G~~V~v~~~~ 132 (149)
T cd06167 111 DFVPLVERLRELGKRVIVVGFE 132 (149)
T ss_pred cHHHHHHHHHHcCCEEEEEccC
Confidence 8999999999999999998643
No 87
>PF12399 BCA_ABC_TP_C: Branched-chain amino acid ATP-binding cassette transporter
Probab=21.30 E-value=51 Score=15.47 Aligned_cols=12 Identities=33% Similarity=0.346 Sum_probs=8.7
Q ss_pred hhccCchHHHhh
Q 031045 82 VVYFNQPEVQKA 93 (166)
Q Consensus 82 ~~ylN~~~V~~a 93 (166)
..-+++|+|++|
T Consensus 9 ~~i~~n~~V~~a 20 (23)
T PF12399_consen 9 EEIRANPEVREA 20 (23)
T ss_pred HHHhcCHHHHHh
Confidence 445678888876
No 88
>PF04214 DUF411: Protein of unknown function, DUF; InterPro: IPR007332 The function of the members of this bacterial protein family is unknown. Some members may be involved in conferring cation resistance.
Probab=21.18 E-value=1.5e+02 Score=18.24 Aligned_cols=31 Identities=19% Similarity=0.422 Sum_probs=22.0
Q ss_pred CchHHHhhhCCCCCccccCccccc------------ccHHHHHHHHhc
Q 031045 86 NQPEVQKALHVIPAVALAKWETCR------------IVLDIYHELIHS 121 (166)
Q Consensus 86 N~~~V~~aLhv~~~~~~~~w~~c~------------~~~~~~~~ll~~ 121 (166)
+...+|+.+||+. ...+|. =-...+++||+.
T Consensus 9 dl~~ik~~~gVP~-----~l~SCHTa~v~gy~iEGHVPa~~I~~lL~e 51 (70)
T PF04214_consen 9 DLSAIKQRLGVPP-----ELASCHTAVVGGYVIEGHVPADDIKRLLAE 51 (70)
T ss_pred chHHHHHHhCCCc-----hhccccEEEECCEEEEccCCHHHHHHHHhc
Confidence 4568899999986 467898 113567778764
No 89
>KOG0412 consensus Golgi transport complex COD1 protein [Intracellular trafficking, secretion, and vesicular transport]
Probab=21.01 E-value=16 Score=32.45 Aligned_cols=59 Identities=15% Similarity=0.150 Sum_probs=42.3
Q ss_pred hhhccCchHHHhhhCCCCCccccCcccccccHHHHHHHHhcCceEEEEecCCCcccChHHH
Q 031045 81 SVVYFNQPEVQKALHVIPAVALAKWETCRIVLDIYHELIHSGLRIWMFSGDTDAVIPVTSA 141 (166)
Q Consensus 81 ~~~ylN~~~V~~aLhv~~~~~~~~w~~c~~~~~~~~~ll~~~irvLiY~Gd~D~i~n~~gt 141 (166)
++.|+-+.+|++|+..+.......| |+||+.-+=.++.+.+|=-+.+|..|..|.++..
T Consensus 434 LE~yfm~esv~kAi~ld~ye~~~~~--~SSmVDDV~yivrk~irRA~~T~si~~~~a~iN~ 492 (773)
T KOG0412|consen 434 LEEYFMLESVQKAIKLDEYEDAGQL--TSSMVDDVFYIVRKCIRRALSTSSIDSLCAFINE 492 (773)
T ss_pred HHHHHHHHHHHHHhcccccccCCcc--hhhhhhhHHHHHHHHHHHHHhcccHHHHHHHHHH
Confidence 6678888999999988753212334 4478877777777667777788888888877654
No 90
>smart00775 LNS2 LNS2 domain. This domain is found in Saccharomyces cerevisiae protein SMP2, proteins with an N-terminal lipin domain and phosphatidylinositol transfer proteins. SMP2 is involved in plasmid maintenance and respiration. Lipin proteins are involved in adipose tissue development and insulin resistance.
Probab=20.68 E-value=1.7e+02 Score=20.55 Aligned_cols=36 Identities=14% Similarity=0.274 Sum_probs=23.7
Q ss_pred ccHHHHHHHHhcCceEEEEecCCCcccChHHHHHHHHH
Q 031045 110 IVLDIYHELIHSGLRIWMFSGDTDAVIPVTSARYSIDA 147 (166)
Q Consensus 110 ~~~~~~~~ll~~~irvLiY~Gd~D~i~n~~gt~~~i~~ 147 (166)
.+...++.+-++|++|++-+|-.....+ .|+.|+.+
T Consensus 31 ~~~~a~~~l~~~G~~ivy~TGRp~~~~~--~t~~~l~~ 66 (157)
T smart00775 31 GVAKLYRDIQNNGYKILYLTARPIGQAD--RTRSYLSQ 66 (157)
T ss_pred HHHHHHHHHHHcCCeEEEEcCCcHHHHH--HHHHHHHH
Confidence 4455666677778888888887655543 45566666
No 91
>COG4359 Uncharacterized conserved protein [Function unknown]
Probab=20.38 E-value=1.1e+02 Score=22.78 Aligned_cols=29 Identities=10% Similarity=0.029 Sum_probs=23.1
Q ss_pred ccHHHHHHHHhcCceEEEEecCCCcccCh
Q 031045 110 IVLDIYHELIHSGLRIWMFSGDTDAVIPV 138 (166)
Q Consensus 110 ~~~~~~~~ll~~~irvLiY~Gd~D~i~n~ 138 (166)
...++++-+-++++++.|.||-+|+.+-.
T Consensus 77 ~fKef~e~ike~di~fiVvSsGm~~fI~~ 105 (220)
T COG4359 77 GFKEFVEWIKEHDIPFIVVSSGMDPFIYP 105 (220)
T ss_pred cHHHHHHHHHHcCCCEEEEeCCCchHHHH
Confidence 56677787888899999999999876533
No 92
>PRK08775 homoserine O-acetyltransferase; Provisional
Probab=20.34 E-value=1.1e+02 Score=24.10 Aligned_cols=27 Identities=11% Similarity=0.196 Sum_probs=23.1
Q ss_pred CceEEEEecCCCcccChHHHHHHHHHc
Q 031045 122 GLRIWMFSGDTDAVIPVTSARYSIDAL 148 (166)
Q Consensus 122 ~irvLiY~Gd~D~i~n~~gt~~~i~~L 148 (166)
.+++||..|+.|.++|....+...+.+
T Consensus 277 ~~PtLvi~G~~D~~~p~~~~~~~~~~i 303 (343)
T PRK08775 277 RVPTVVVAVEGDRLVPLADLVELAEGL 303 (343)
T ss_pred CCCeEEEEeCCCEeeCHHHHHHHHHHc
Confidence 479999999999999988777777766
Done!